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Merge pull request #136 from PoisotLab/develop
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Prepare for v0.2.0
tpoisot authored Jul 8, 2019

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2 parents 299a5b5 + 25ef338 commit 22bba7b
Showing 40 changed files with 7,923 additions and 289 deletions.
23 changes: 0 additions & 23 deletions .github/issue_template.md

This file was deleted.

40 changes: 20 additions & 20 deletions Manifest.toml
Original file line number Diff line number Diff line change
@@ -1,10 +1,10 @@
# This file is machine-generated - editing it directly is not advised

[[Arpack]]
deps = ["BinaryProvider", "Libdl", "LinearAlgebra", "Random", "SparseArrays", "Test"]
git-tree-sha1 = "1ce1ce9984683f0b6a587d5bdbc688ecb480096f"
deps = ["BinaryProvider", "Libdl", "LinearAlgebra"]
git-tree-sha1 = "07a2c077bdd4b6d23a40342a8a108e2ee5e58ab6"
uuid = "7d9fca2a-8960-54d3-9f78-7d1dccf2cb97"
version = "0.3.0"
version = "0.3.1"

[[Base64]]
uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f"
@@ -16,10 +16,10 @@ uuid = "9e28174c-4ba2-5203-b857-d8d62c4213ee"
version = "0.8.10"

[[BinaryProvider]]
deps = ["Libdl", "Pkg", "SHA", "Test"]
git-tree-sha1 = "055eb2690182ebc31087859c3dd8598371d3ef9e"
deps = ["Libdl", "Logging", "SHA"]
git-tree-sha1 = "8153fd64131cd00a79544bb23788877741f627bb"
uuid = "b99e7846-7c00-51b0-8f62-c81ae34c0232"
version = "0.5.3"
version = "0.5.5"

[[Combinatorics]]
deps = ["LinearAlgebra", "Polynomials", "Test"]
@@ -34,10 +34,10 @@ uuid = "34da2185-b29b-5c13-b0c7-acf172513d20"
version = "2.1.0"

[[DataStructures]]
deps = ["InteractiveUtils", "OrderedCollections", "Random", "Serialization", "Test"]
git-tree-sha1 = "ca971f03e146cf144a9e2f2ce59674f5bf0e8038"
deps = ["InteractiveUtils", "OrderedCollections"]
git-tree-sha1 = "0809951a1774dc724da22d26e4289bbaab77809a"
uuid = "864edb3b-99cc-5e75-8d2d-829cb0a9cfe8"
version = "0.15.0"
version = "0.17.0"

[[Dates]]
deps = ["Printf"]
@@ -52,10 +52,10 @@ deps = ["Random", "Serialization", "Sockets"]
uuid = "8ba89e20-285c-5b6f-9357-94700520ee1b"

[[Distributions]]
deps = ["Distributed", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsBase", "StatsFuns", "Test"]
git-tree-sha1 = "dec0ebacfbc3a2126c614ab5e903c9ef063688d0"
deps = ["LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsBase", "StatsFuns"]
git-tree-sha1 = "56a158bc0abe4af5d4027af2275fde484261ca6d"
uuid = "31c24e10-a181-5473-b8eb-7969acd0382f"
version = "0.17.0"
version = "0.19.2"

[[InteractiveUtils]]
deps = ["Markdown"]
@@ -79,10 +79,10 @@ deps = ["Base64"]
uuid = "d6f4376e-aef5-505a-96c1-9c027394607a"

[[Missings]]
deps = ["Dates", "InteractiveUtils", "SparseArrays", "Test"]
git-tree-sha1 = "d1d2585677f2bd93a97cfeb8faa7a0de0f982042"
deps = ["SparseArrays", "Test"]
git-tree-sha1 = "f0719736664b4358aa9ec173077d4285775f8007"
uuid = "e1d29d7a-bbdc-5cf2-9ac0-f12de2c33e28"
version = "0.4.0"
version = "0.4.1"

[[Mmap]]
uuid = "a63ad114-7e13-5084-954f-fe012c677804"
@@ -95,9 +95,9 @@ version = "1.1.0"

[[PDMats]]
deps = ["Arpack", "LinearAlgebra", "SparseArrays", "SuiteSparse", "Test"]
git-tree-sha1 = "b6c91fc0ab970c0563cbbe69af18d741a49ce551"
git-tree-sha1 = "8b68513175b2dc4023a564cb0e917ce90e74fd69"
uuid = "90014a1f-27ba-587c-ab20-58faa44d9150"
version = "0.9.6"
version = "0.9.7"

[[Pkg]]
deps = ["Dates", "LibGit2", "Markdown", "Printf", "REPL", "Random", "SHA", "UUIDs"]
@@ -173,10 +173,10 @@ deps = ["LinearAlgebra", "SparseArrays"]
uuid = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"

[[StatsBase]]
deps = ["DataStructures", "DelimitedFiles", "LinearAlgebra", "Missings", "Printf", "Random", "SortingAlgorithms", "SparseArrays", "Statistics", "Test"]
git-tree-sha1 = "435707791dc85a67d98d671c1c3fcf1b20b00f94"
deps = ["DataStructures", "LinearAlgebra", "Missings", "Printf", "Random", "SortingAlgorithms", "SparseArrays", "Statistics"]
git-tree-sha1 = "2b6ca97be7ddfad5d9f16a13fe277d29f3d11c23"
uuid = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91"
version = "0.29.0"
version = "0.31.0"

[[StatsFuns]]
deps = ["Rmath", "SpecialFunctions", "Test"]
3 changes: 2 additions & 1 deletion Project.toml
Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
name = "EcologicalNetworks"
uuid = "f03a62fe-f8ab-5b77-a061-bb599b765229"
repo = "https://github.com/PoisotLab/EcologicalNetworks.jl"
version = "0.1.0"
version = "0.2.0"

[deps]
Combinatorics = "861a8166-3701-5b0c-9a16-15d98fcdc6aa"
@@ -11,6 +11,7 @@ Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f"
LinearAlgebra = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
Random = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c"
Requires = "ae029012-a4dd-5104-9daa-d747884805df"
Statistics = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"
StatsBase = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91"
Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"

20 changes: 12 additions & 8 deletions README.md
Original file line number Diff line number Diff line change
@@ -1,18 +1,16 @@
# EcologicalNetworks.jl

This `julia` package provides a common interface to analyze all types of data on
ecological networks. It is designed to be general, easy to expand, and work on
bipartite/unipartite as well as deterministic/quantitative/probabilistic
This `julia` package provides a common interface to analyze all types of data
on ecological networks. It is designed to be general, easy to expand, and work
on bipartite/unipartite as well as deterministic/quantitative/probabilistic
networks. The current version is compatible with `julia` version 1.0 and 0.7.

[![](https://img.shields.io/badge/docs-stable-blue.svg)](https://PoisotLab.github.io/EcologicalNetworks.jl/stable)
[![](https://img.shields.io/badge/docs-latest-blue.svg)](https://PoisotLab.github.io/EcologicalNetworks.jl/latest)
[![](https://img.shields.io/badge/docs-dev-orange.svg)](https://PoisotLab.github.io/EcologicalNetworks.jl/dev)
[![Join the chat at https://gitter.im/PoisotLab/EcologicalNetworks.jl](https://badges.gitter.im/PoisotLab/EcologicalNetworks.jl.svg)](https://gitter.im/PoisotLab/EcologicalNetworks.jl?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge)

[![Waffle.io - Columns and their card count](https://badge.waffle.io/PoisotLab/EcologicalNetworks.jl.svg?columns=all)](https://waffle.io/PoisotLab/EcologicalNetworks.jl)

There is a short bibliography of the methods in the [package
documentation][pdocref].
documentation][pdocref], and in the documentations of each function.

[pdocref]: http://poisotlab.io/EcologicalNetworks.jl/latest/#references

@@ -24,8 +22,14 @@ Install (from the package mode):
add EcologicalNetworks
~~~

Optionally, if you want to visualize networks, install

```
add EcologicalNetworksPlots
```

That's it. Now head over to the
[documentation](http://poisotlab.io/EcologicalNetworks.jl/stable/).
[documentation](http://PoisotLab.github.io/EcologicalNetworks.jl/stable/).

## How's the code doing?

306 changes: 306 additions & 0 deletions data/pajek/ChesLower.paj
Original file line number Diff line number Diff line change
@@ -0,0 +1,306 @@
% Web 46 Lower Chesapeake Bay in Summer; Hagy 2001; mgC/m2/summer
% from datall.zip from http://www.cbl.cees.edu/~ulan/ntwk/network.html
% Lower Chesapeake Bay in Summer
% Hagy, J.D. 2002. Eutrophication, hypoxia and trophic transfer
% efficiency in Chesapeake Bay PhD Dissertation, University of Maryland
% at College Park (USA), 446 pp.
% transformed from SCOR format by Scor2net 15.7.2003
*partition ECO types / ChesLower
*vertices 37
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
2
2
2
3
4
5

*network ChesLower
*vertices 37
1 "Net Phytoplankton"
2 "Picoplankton"
3 "Free Bacteria"
4 "Particle Attached Bacteria"
5 "Heteroflagellates"
6 "Ciliates"
7 "Rotifers"
8 "Meroplankton"
9 "Mesozooplankton"
10 "Ctenophores"
11 "Chrysaora"
12 "Microphytobenthos"
13 "SAV"
14 "Benthic Bacteria"
15 "Meiofauna"
16 "Deposit Feeding Benthos"
17 "Suspension Feeding Benthos"
18 "Oysters"
19 "Blue Crab"
20 "Menhaden"
21 "Bay anchovy"
22 "Herrings and Shads"
23 "White Perch"
24 "Spot"
25 "Croaker"
26 "Hogchoker"
27 "American eel"
28 "Catfish"
29 "Striped Bass"
30 "Bluefish"
31 "Weakfish"
32 "DOC"
33 "Sediment POC"
34 "POC"
35 "Input"
36 "Output"
37 "Respiration"
*arcs
35 1 195627.300
35 2 47744.870
35 12 26965.840
35 13 1644.408
35 18 0.0000001
35 19 12.880
35 22 0.0000001
35 23 0.0000001
35 24 11.040
35 27 0.0000001
35 28 0.0000001
35 32 18400.000
35 33 20792.000
18 36 0.0000001
19 36 100.280
20 36 2815.200
21 36 497.720
22 36 0.0000001
23 36 0.0000001
24 36 23.184
25 36 11.960
28 36 0.0000001
27 36 0.0000001
29 36 22.080
30 36 21.160
31 36 133.216
32 36 1528.560
33 36 11336.000
34 36 0.000
1 37 38824.000
2 37 8556.000
3 37 106477.100
4 37 5884.320
5 37 8582.128
6 37 11605.800
7 37 0.000
8 37 1754.992
9 37 8440.264
10 37 741.244
11 37 0.000
12 37 5428.000
13 37 0.000
14 37 53433.600
15 37 4508.000
16 37 7899.948
17 37 13450.580
18 37 0.000
19 37 93.104
20 37 12183.740
21 37 3280.904
22 37 0.000
23 37 0.000
24 37 759.368
25 37 314.364
26 37 945.760
27 37 0.000
28 37 0.000
29 37 299.092
30 37 324.576
31 37 922.116
32 37 0.000
33 37 0.000
34 37 0.000
1 6 16008.000
1 7 0.092
1 8 3502.992
1 9 33115.210
1 17 25556.130
1 20 17686.080
1 32 48747.860
1 34 12186.960
2 6 8004.000
2 8 408.664
2 9 4213.416
2 17 1345.040
2 32 20174.130
2 34 5043.532
3 5 37305.080
3 6 8004.000
3 32 18380.130
3 34 4595.032
4 17 2241.764
4 32 1220.472
4 34 305.164
5 6 8004.000
5 32 16575.180
5 34 4143.772
6 8 1342.832
6 9 13848.210
6 21 510.048
6 32 10170.510
6 34 2542.604
8 10 65.596
8 20 491.280
8 21 714.012
8 32 1406.220
8 34 1406.220
9 9 3023.396
9 10 3213.284
9 20 491.280
9 21 8670.080
9 32 18189.230
9 34 18189.230
10 11 0.092
10 32 1268.772
10 34 1268.772
12 15 9016.000
12 16 5266.632
12 32 3627.652
12 33 3627.652
13 33 1644.408
14 15 4508.000
14 16 3950.020
14 32 7206.636
14 33 7206.636
15 16 3950.020
15 19 18.860
15 24 94.392
15 25 39.100
15 26 193.200
15 33 9228.520
16 19 188.784
16 24 1132.704
16 25 469.016
16 26 676.200
16 29 39.560
16 31 65.964
16 32 3172.160
16 33 12688.820
17 19 94.392
17 24 660.744
17 25 273.608
17 26 1062.600
17 29 19.780
17 31 65.964
17 32 5841.540
17 33 23366.070
19 29 19.780
19 33 177.284
20 29 197.800
20 30 35.512
20 31 594.044
20 32 764.980
20 33 2294.940
20 34 764.980
21 29 79.120
21 30 137.724
21 31 197.984
21 33 4805.344
21 34 1201.336
24 29 39.560
24 30 66.608
24 31 395.968
24 32 307.096
24 34 307.096
25 30 204.332
25 32 125.488
25 34 125.488
26 32 493.120
26 34 493.120
29 32 37.260
29 34 37.260
30 32 49.220
30 34 49.220
31 32 132.296
31 34 132.296
32 3 174761.400
33 14 76304.800
33 15 4508.000
33 16 13166.580
33 19 75.532
34 4 9651.720
34 8 583.832
34 9 6016.524
34 17 15692.350
34 20 982.560
34 21 305.992
34 33 19559.200

*vector bio-masses / ChesLower
*vertices 37
2112.000
373.000
1258.000
39.000
43.000
87.000
0.001
38.000
1073.000
108.000
0.001
293.000
1986.000
220.000
700.000
4089.000
6962.000
0.001
342.000
2136.000
381.000
0.001
0.001
570.000
236.000
100.000
0.001
0.001
172.000
68.000
211.000
26915.000
76080.000
8309.000
0.000
0.000
0.000

337 changes: 337 additions & 0 deletions data/pajek/ChesMiddle.paj
Original file line number Diff line number Diff line change
@@ -0,0 +1,337 @@
% Web 45 Middle Chesapeake Bay in Summer; Hagy 2001; mgC/m2/summer
% from datall.zip from http://www.cbl.cees.edu/~ulan/ntwk/network.html
% Middle Chesapeake Bay in Summer
% Hagy, J.D. 2002. Eutrophication, hypoxia and trophic transfer
% efficiency in Chesapeake Bay PhD Dissertation, University of Maryland
% at College Park (USA), 446 pp.
% transformed from SCOR format by Scor2net 15.7.2003
*partition ECO types / ChesMiddle
*vertices 37
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
2
2
2
3
4
5

*network ChesMiddle
*vertices 37
1 "Net Phytoplankton"
2 "Picoplankton"
3 "Free Bacteria"
4 "Particle Attached Bacteria"
5 "Heteroflagellates"
6 "Ciliates"
7 "Rotifers"
8 "Meroplankton"
9 "Mesozooplankton"
10 "Ctenophores"
11 "Chrysaora"
12 "Microphytobenthos"
13 "SAV"
14 "Benthic Bacteria"
15 "Meiofauna"
16 "Deposit Feeding Benthos"
17 "Suspension Feeding Benthos"
18 "Oysters"
19 "Blue Crab"
20 "Menhaden"
21 "Bay anchovy"
22 "Herrings and Shads"
23 "White Perch"
24 "Spot"
25 "Croaker"
26 "Hogchoker"
27 "American eel"
28 "Catfish"
29 "Striped Bass"
30 "Bluefish"
31 "Weakfish"
32 "DOC"
33 "Sediment POC"
34 "POC"
35 "Input"
36 "Output"
37 "Respiration"
*arcs
35 1 241715.300
35 2 60507.480
35 12 19504.000
35 13 1616.256
35 16 506.000
35 17 207.000
35 18 0.0000001
35 19 115.000
35 22 0.0000001
35 27 0.552
35 33 55200.000
18 36 0.0000001
19 36 192.280
20 36 4416.000
21 36 497.720
22 36 0.0000001
24 36 3.680
25 36 2.760
27 36 2.944
28 36 1.748
29 36 22.080
30 36 18.952
31 36 42.136
32 36 703.000
33 36 1105.100
34 36 0.0781000
1 37 61180.000
2 37 13524.000
3 37 131086.200
4 37 7589.080
5 37 25222.720
6 37 19638.230
7 37 634.800
8 37 831.312
9 37 8008.876
10 37 864.800
11 37 24.380
12 37 4876.000
13 37 0.000
14 37 72378.240
15 37 3181.360
16 37 1942.580
17 37 793.960
18 37 0.000
19 37 106.168
20 37 14354.390
21 37 4239.636
22 37 0.000
23 37 8.738
24 37 295.780
25 37 301.024
26 37 354.200
27 37 3.680
28 37 6.440
29 37 299.092
30 37 324.576
31 37 292.836
32 37 0.000
33 37 0.000
34 37 0.000
1 6 26993.900
1 7 1481.200
1 8 1645.512
1 9 34839.850
1 17 1469.884
1 20 17686.080
1 32 48209.470
1 34 48209.470
2 6 13496.950
2 7 105.800
2 8 138.276
2 9 2927.716
2 17 133.584
2 32 24144.940
2 34 6036.212
3 5 109664.000
3 6 13496.950
3 32 3962.624
3 34 3962.624
4 17 133.584
4 32 5218.792
4 34 2236.612
5 6 13496.950
5 7 105.800
5 32 49586.990
5 34 21251.540
6 7 423.200
6 8 691.380
6 9 14638.580
6 21 510.048
6 32 15791.710
6 34 15791.710
7 8 13.800
7 9 292.744
7 21 50.968
7 32 561.844
7 34 561.844
8 10 76.544
8 21 663.044
8 32 597.356
8 34 597.356
9 8 138.276
9 9 2927.716
9 10 3672.364
9 11 17.940
9 20 982.560
9 21 8670.080
9 23 0.920
9 32 17067.750
9 34 17067.750
10 11 323.380
10 32 1318.636
10 34 1318.636
11 32 167.532
11 34 167.532
12 15 6362.720
12 16 653.844
12 32 3805.764
12 33 3805.764
13 33 1616.256
14 15 3181.360
14 16 653.844
14 32 13572.480
14 33 13572.480
15 16 1961.532
15 19 43.056
15 24 73.508
15 25 74.888
15 26 69.000
15 33 7322.096
16 19 129.168
16 23 5.796
16 24 441.140
16 25 449.144
16 26 414.000
16 27 4.600
16 28 4.876
16 29 39.560
16 31 33.488
16 32 716.036
16 33 2864.144
17 19 172.224
17 23 5.796
17 24 147.016
17 25 149.684
17 26 138.000
17 27 4.600
17 28 6.440
17 29 19.780
17 31 33.488
17 32 281.704
17 33 1126.724
19 19 43.056
19 29 19.780
19 33 184.276
20 29 197.800
20 30 35.512
20 31 104.788
20 33 542.708
21 10 76.544
21 11 17.940
21 23 4.784
21 28 1.656
21 29 79.120
21 30 137.724
21 31 155.112
21 32 2494.948
21 34 2494.948
23 32 5.244
23 34 5.244
24 28 1.656
24 29 39.560
24 30 66.608
24 31 92.184
24 32 117.944
24 34 117.944
25 30 204.332
25 32 120.060
25 34 120.060
26 32 167.900
26 34 167.900
27 32 1.472
27 34 1.472
28 32 4.048
28 34 4.048
29 32 37.260
29 34 37.260
30 32 50.324
30 34 50.324
31 32 42.136
31 34 42.136
32 3 262172.400
33 14 103358.300
33 15 3181.360
33 16 3269.220
33 19 43.056
33 23 1.932
33 24 73.508
33 25 74.888
33 26 69.000
33 28 1.656
34 4 15178.160
34 8 138.276
34 9 2927.716
34 17 935.364
34 20 982.560
34 21 305.992
34 32 74830.870
34 33 24943.590

*vector bio-masses / ChesMiddle
*vertices 37
3326.000
587.000
2415.000
73.000
149.000
147.000
23.000
18.000
526.000
126.000
6.300
265.000
1952.000
298.000
494.000
1030.000
421.000
0.001
390.000
2136.000
381.000
0.001
29.000
222.000
226.000
50.000
9.000
45.000
172.000
68.000
67.000
28207.000
201607.000
10324.000
0.000
0.000
0.000

343 changes: 343 additions & 0 deletions data/pajek/ChesUpper.paj
Original file line number Diff line number Diff line change
@@ -0,0 +1,343 @@
% Web 44 Upper Chesapeake Bay in Summer; Hagy 2001; mgC/m2/summer
% from datall.zip from http://www.cbl.cees.edu/~ulan/ntwk/network.html
% Upper Chesapeake Bay in Summer
% Hagy, J.D. 2002. Eutrophication, hypoxia and trophic transfer
% efficiency in Chesapeake Bay PhD Dissertation, University of Maryland
% at College Park (USA), 446 pp.
% transformed from SCOR format by Scor2net 15.7.2003
*partition ECO types / ChesUpper
*vertices 37
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
2
2
2
3
4
5

*network ChesUpper
*vertices 37
1 "Net Phytoplankton"
2 "Picoplankton"
3 "Free Bacteria"
4 "Particle Attached Bacteria"
5 "Heteroflagellates"
6 "Ciliates"
7 "Rotifers"
8 "Meroplankton"
9 "Mesozooplankton"
10 "Ctenophores"
11 "Chrysaora"
12 "Microphytobenthos"
13 "SAV"
14 "Benthic Bacteria"
15 "Meiofauna"
16 "Deposit Feeding Benthos"
17 "Suspension Feeding Benthos"
18 "Oysters"
19 "Blue Crab"
20 "Menhaden"
21 "Bay anchovy"
22 "Herrings and Shads"
23 "White Perch"
24 "Spot"
25 "Croaker"
26 "Hogchoker"
27 "American Eel"
28 "Catfish"
29 "Striped Bass"
30 "Bluefish"
31 "Weakfish"
32 "DOC"
33 "Sediment POC"
34 "POC"
35 "Input"
36 "Output"
37 "Respiration"
*arcs
35 1 91050.560
35 2 22670.640
35 12 21564.800
35 13 1535.296
35 18 0.0000001
35 19 11.960
35 27 2.024
35 32 88.000
35 33 24288.000
35 34 9731.000
18 36 0.0000001
19 36 167.440
20 36 4416.000
21 36 368.000
23 36 12.880
28 36 16.560
27 36 11.592
29 36 22.080
30 36 19.320
31 36 42.320
32 36 0.0000000
33 36 0.0000000
34 36 0.0000000
1 37 24932.000
2 37 5520.000
3 37 42392.680
4 37 3444.480
5 37 5987.544
6 37 8804.400
7 37 386.400
8 37 147.752
9 37 3126.252
10 37 110.768
11 37 0.0000000
12 37 5391.200
13 37 0.0000000
14 37 7286.400
15 37 4508.000
16 37 4574.976
17 37 31316.800
18 37 0.0000000
19 37 166.152
20 37 12183.740
21 37 3193.688
22 37 282.440
23 37 75.164
24 37 259.808
25 37 66.608
26 37 708.400
27 37 14.444
28 37 65.412
29 37 299.092
30 37 324.576
31 37 292.836
32 37 0.0000000
33 37 0.0000000
34 37 0.0000000
1 6 15180.000
1 7 966.000
1 8 240.948
1 9 10978.180
1 17 20543.780
1 20 17686.080
1 32 418.876
1 33 52.348
1 34 52.348
2 6 3036.000
2 7 128.800
2 8 49.128
2 9 2360.904
2 17 5135.992
2 32 5151.816
2 34 1288.000
3 5 26026.800
3 6 6072.000
3 32 71.760
3 34 71.760
4 17 2054.360
4 32 264.500
4 34 264.500
5 6 6072.000
5 7 64.400
5 32 6951.428
5 34 6951.428
6 7 128.800
6 8 172.040
6 9 8263.164
6 21 384.192
6 22 35.144
6 32 6286.176
6 34 6286.176
7 8 4.876
7 9 118.036
7 21 76.820
7 22 6.992
7 32 347.392
7 34 347.392
8 10 10.672
8 21 76.820
8 22 6.992
8 32 124.660
8 34 124.660
9 9 708.308
9 10 510.508
9 20 982.560
9 21 6915.180
9 22 631.948
9 23 9.384
9 32 5362.496
9 34 5362.496
10 11 0.092
10 32 210.496
10 34 210.496
12 15 9016.000
12 16 3812.480
12 32 1672.560
12 33 1672.560
13 33 1535.296
14 15 1803.200
14 16 762.496
14 33 553.104
15 16 3812.480
15 19 67.344
15 23 18.676
15 24 64.584
15 25 16.560
15 33 9544.356
16 19 67.344
16 23 37.352
16 24 258.336
16 25 66.240
16 26 552.000
16 27 17.756
16 29 19.780
16 31 33.488
16 33 8660.420
16 34 962.228
17 19 404.064
17 23 56.028
17 24 258.336
17 25 66.240
17 26 690.000
17 27 17.756
17 28 114.172
17 29 19.780
17 31 33.488
17 32 34871.220
17 34 34871.220
19 29 19.780
19 32 166.060
19 34 166.060
20 29 197.800
20 30 88.872
20 31 67.068
20 32 1348.904
20 34 1348.904
21 10 10.672
21 19 67.344
21 23 46.736
21 28 32.660
21 29 59.340
21 30 133.216
21 31 159.252
21 32 1806.328
21 34 1806.328
22 29 39.560
22 30 111.044
22 31 20.976
22 32 124.108
22 34 124.108
23 29 11.868
23 31 20.976
23 32 32.936
23 34 32.936
24 29 19.780
24 30 88.872
24 31 62.836
24 32 107.272
24 34 107.272
25 30 22.172
25 32 38.364
25 34 38.364
26 29 7.912
26 31 20.976
26 32 321.356
26 34 321.356
27 32 5.704
27 34 5.704
28 32 40.388
28 34 40.388
29 32 37.260
29 34 37.260
30 32 50.324
30 34 50.324
31 32 42.136
31 34 42.136
32 3 74635.000
33 14 10405.200
33 15 7212.800
33 16 6862.464
33 19 67.344
33 28 16.284
33 32 8696.760
33 34 13045.140
34 4 6027.840
34 8 24.564
34 9 1180.452
34 17 74984.970
34 20 982.560
34 21 230.552
34 22 21.068
34 23 18.676
34 24 64.584
34 25 16.560
34 26 138.000

*vector bio-masses / ChesUpper
*vertices 37
1356.000
239.000
649.000
36.000
30.000
66.000
14.000
3.200
282.000
17.000
0.001
293.000
2086.000
30.000
700.000
2368.000
27232.000
0.001
610.000
2136.000
287.000
212.000
282.000
195.000
50.000
100.000
35.000
450.000
172.000
68.000
67.000
12504.000
201670.000
5249.000
0.000
0.000
0.000

310 changes: 310 additions & 0 deletions data/pajek/Chesapeake.paj
Original file line number Diff line number Diff line change
@@ -0,0 +1,310 @@
% Web 34 Chesapeake Bay Mesohaline Network; D. Baird; Umcees Ref No. XXX-86; MGC/M2/SUM 1
% from datall.zip from http://www.cbl.cees.edu/~ulan/ntwk/network.html
% Chesapeake Bay mesohaline ecosystem. Summer carbon flows.
% Baird, D. and R.E. Ulanowicz. 1989. The seasonal dynamics of the
% Chesapeake Bay ecosystem. Ecol. Monogr. 59: 329-364.
% transformed from SCOR format by Scor2net 15.7.2003
*partition ECO types / chesapeake
*vertices 39
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
2
2
2
3
4
5

*network chesapeake
*vertices 39
1 "phytoplankton"
2 "bacteria in suspended poc"
3 "bacteria in sediment poc"
4 "benthic diatoms"
5 "free bacteria"
6 "heterotrophic microflagel"
7 "ciliates"
8 "zooplankton"
9 "ctenophores"
10 "sea nettle"
11 "other suspension feeders"
12 "mya arenaria"
13 "oysters"
14 "other polychaetes"
15 "nereis"
16 "macoma spp."
17 "meiofauna"
18 "crustacean deposit feeder"
19 "blue crab"
20 "fish larvae"
21 "alewife & blue herring"
22 "bay anchovy"
23 "menhaden"
24 "shad"
25 "croaker"
26 "hogchoker"
27 "spot"
28 "white perch"
29 "catfish"
30 "bluefish"
31 "weakfish"
32 "summer flounder"
33 "striped bass"
34 "dissolved organic carbon"
35 "suspended particulate org"
36 "sediment particulate orga"
37 "Input"
38 "Output"
39 "Respiration"
*arcs
37 1 522650.0000000
37 4 77803.0000000
37 34 103188.0000000
37 35 185150.4000000
8 38 18720.2400000
12 38 533.1050000
13 38 3133.6600000
19 38 1325.1570000
20 38 0.9376155
21 38 4.0630230
22 38 96.1815900
23 38 7.6839110
24 38 0.9376006
25 38 1.3343430
26 38 12.2117700
27 38 55.7901100
28 38 19.4779300
29 38 28.5216700
30 38 2.3624590
31 38 8.3364240
32 38 4.2375820
33 38 4.6160970
1 39 239556.2000000
2 39 15419.4500000
3 39 277306.4000000
4 39 27832.0000000
5 39 84148.4300000
6 39 45766.6300000
7 39 37288.1000000
8 39 40631.3000000
9 39 6698.6920000
10 39 1119.4060000
11 39 3455.9330000
12 39 1930.2800000
13 39 3243.6310000
14 39 19939.5200000
15 39 1400.1850000
16 39 24477.1700000
17 39 21384.0300000
18 39 7624.7390000
19 39 4297.8520000
20 39 0.6251083
21 39 8.7511260
22 39 761.7415000
23 39 226.8830000
24 39 1.6669600
25 39 2.5852990
26 39 26.8146500
27 39 129.3927000
28 39 41.0061700
29 39 58.7946700
30 39 4.9066550
31 39 31.5742200
32 39 8.4751750
33 39 10.1554200
1 7 33671.4500000
1 8 39440.6700000
1 11 4458.0310000
1 12 2415.3420000
1 13 4687.3550000
1 22 294.0877000
1 23 22.0831200
1 34 78834.6300000
1 35 119270.1000000
2 7 1443.3160000
2 8 1131.0060000
2 9 124.1849000
2 11 158.4640000
2 12 71.0214200
2 13 109.9190000
2 22 13.3421800
2 23 5.1316060
2 35 4179.1800000
2 36 9915.2890000
3 14 134896.3000000
3 15 21021.1000000
3 16 48089.0900000
3 17 30162.7400000
3 18 11805.2400000
3 36 100313.7000000
4 17 18086.0000000
4 36 31885.0000000
5 6 91011.1200000
5 35 6862.6860000
6 7 32454.6600000
6 35 12789.8300000
7 8 7850.8370000
7 9 3571.5850000
7 11 301.3558000
7 12 162.1086000
7 13 315.9040000
7 35 40009.6500000
8 9 7165.5120000
8 10 1207.4480000
8 20 5.1048280
8 21 26.7743000
8 22 1598.1240000
8 23 258.5752000
8 24 5.4173680
8 35 22905.0500000
9 10 572.5732000
9 35 6386.4730000
9 36 608.8777000
10 35 465.0319000
10 36 195.5839000
11 19 556.1747000
11 36 3570.6830000
12 19 225.1819000
12 26 9.4262170
12 36 1407.6480000
13 36 1594.0610000
14 25 6.0043720
14 26 49.2024900
14 27 261.8573000
14 28 63.3794800
14 29 127.4261000
14 36 114449.2000000
15 19 293.5468000
15 25 1.7512740
15 26 11.6751600
15 27 80.8921600
15 28 49.2024500
15 29 18.8470400
15 36 19165.0200000
16 19 3784.4500000
16 27 45.8670600
16 36 19782.0500000
17 36 26864.7600000
18 19 806.4227000
18 25 0.2501829
18 26 11.6752000
18 27 1.6678860
18 29 35.9429400
18 32 0.7505485
18 36 3323.8460000
19 19 249.7562000
19 33 2.0457840
19 36 1458.4740000
20 36 3.5421030
21 33 0.2083602
21 36 13.7517700
22 27 15.1097800
22 28 15.2139900
22 30 2.8135460
22 31 95.2437400
22 32 12.8172700
22 33 17.9233300
22 36 1204.6150000
23 30 2.6997520
23 32 8.3069310
23 33 11.0066800
23 36 137.9989000
24 36 2.8128020
25 36 4.0864270
26 36 42.9546900
27 30 8.5701670
27 36 211.6495000
28 36 67.3184600
29 36 94.9054400
30 36 6.8147860
31 32 4.4808280
31 36 50.8521800
32 36 13.6429500
33 36 16.4127900
34 5 182022.2000000
35 2 32570.3000000
35 7 21930.1200000
35 8 44101.0200000
35 9 3405.3340000
35 11 2664.9460000
35 12 1457.1710000
35 13 2858.2020000
35 22 316.1070000
35 23 108.7901000
35 36 288606.4000000
36 3 623594.4000000
36 19 1417.6960000

*vector bio-masses / chesapeake
*vertices 39
3480.0000000
79.0000000
600.0000000
177.2500000
390.5000000
39.0000000
148.7500000
197.5000000
19.2500000
1.7500070
363.7500000
110.0000000
1100.0000000
1186.5000000
113.2500000
1890.2500000
337.5000000
228.0000000
275.0000000
0.1000075
1.1500000
72.7500000
31.5250000
0.4500050
0.9500025
9.0000000
35.0000000
25.4750000
22.3750000
2.2500020
6.3000020
4.4250020
4.4000020
21857.5000000
7631.0000000
305000.0000000
0.0000000
0.0000000
0.0000000

215 changes: 215 additions & 0 deletions data/pajek/CrystalC.paj
Original file line number Diff line number Diff line change
@@ -0,0 +1,215 @@
% Web 1 Crystal River Creek (Control); Homer & Kemp Unpubl. Ms.; Mg/M2/Day
% from datall.zip from http://www.cbl.cees.edu/~ulan/ntwk/network.html
% Tidal Marsh Gut, Vicinity of Crystal River Nuclear Power
% Plant, Crystal River, Florida, USA
% Homer, M. and W.M. Kemp. Unpublished Ms. See also Ulanowicz, R.E.
% 1986. Growth and Development: Ecosystems Phenomenology. Springer, New
% York. pp 69-79.
% transformed from SCOR format by Scor2net 15.7.2003
*partition ECO types / CrystalC
*vertices 24
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
2
3
4
5

*network CrystalC
*vertices 24
1 "microphytes"
2 "macrophytes"
3 "zooplankton"
4 "benthic invertebrates"
5 "blacktip shark"
6 "stingray"
7 "striped anchovy"
8 "bay anchovy"
9 "needlefish"
10 "sheepshead killifish"
11 "goldspotted killifish"
12 "gulf killifish"
13 "longnosed killifish"
14 "silverside"
15 "moharra"
16 "silver jenny"
17 "sheepshead"
18 "pinfish"
19 "mullet"
20 "gulf flounder"
21 "detritus"
22 "Input"
23 "Output"
24 "Respiration"
*arcs
22 2 6704.00
22 8 1.57
22 9 0.02
22 12 0.16
22 18 0.07
3 23 39.94
4 23 427.91
5 23 1.21
6 23 0.09
7 23 0.01
8 23 0.74
9 23 0.32
10 23 0.14
11 23 0.09
12 23 1.50
13 23 1.27
14 23 0.43
15 23 1.49
16 23 0.04
17 23 0.09
18 23 0.38
19 23 2.41
20 23 0.04
21 23 567.79
2 24 2322.00
3 24 31.30
4 24 981.60
5 24 0.80
6 24 0.46
7 24 0.11
8 24 0.73
9 24 0.89
10 24 0.54
11 24 0.89
12 24 3.70
13 24 2.87
14 24 7.23
15 24 2.94
16 24 0.06
17 24 0.12
18 24 1.16
19 24 11.15
20 24 0.05
21 24 2530.10
1 10 0.44
1 11 0.32
1 17 0.16
1 19 8.15
1 21 404.00
2 21 4163.00
3 7 0.09
3 8 0.64
3 11 0.22
3 14 5.86
3 15 3.20
3 16 0.05
3 21 73.20
4 7 0.01
4 8 1.00
4 9 0.12
4 10 0.15
4 11 0.61
4 12 2.68
4 13 5.28
4 14 8.59
4 15 2.30
4 16 0.06
4 17 0.16
4 18 0.53
4 21 686.90
5 21 0.50
6 21 0.15
7 21 0.03
8 9 0.63
8 12 0.50
8 18 0.74
8 20 0.02
8 21 0.22
9 18 0.02
9 21 0.32
10 6 0.03
10 12 0.01
10 18 0.01
10 21 0.65
11 6 0.01
11 12 0.09
11 18 0.10
11 21 0.68
12 6 0.07
12 21 1.32
13 9 0.05
13 12 0.03
13 21 1.06
14 6 0.51
14 9 0.62
14 12 2.67
14 18 0.56
14 20 0.02
14 21 3.38
15 9 0.02
15 12 0.37
15 18 0.01
15 20 0.04
15 21 1.53
16 21 0.03
17 21 0.11
18 9 0.06
18 20 0.03
18 21 0.41
19 5 2.51
19 6 0.08
19 9 0.03
19 12 0.08
19 21 16.29
20 21 0.02
21 3 109.80
21 4 2117.90
21 7 0.05
21 8 0.37
21 10 0.79
21 11 0.71
21 14 0.97
21 15 0.90
21 16 0.02
21 19 24.40

*vector bio-masses / CrystalC
*vertices 24
332.0
446000.0
261.0
14148.0
107.0
40.0
4.0
15.0
46.0
16.0
27.0
156.0
121.0
246.0
82.0
2.0
13.0
54.0
864.0
2.0
695000.0
0.0
0.0
0.0

190 changes: 190 additions & 0 deletions data/pajek/CrystalD.paj
Original file line number Diff line number Diff line change
@@ -0,0 +1,190 @@
% Web 2 Crystal River Creek (Delta Temp), Homer & Kemp Unpbl. Ms., Mg/M2/Day
% from datall.zip from http://www.cbl.cees.edu/~ulan/ntwk/network.html
% Tidal Marsh Gut with thermal effluent (6 deg. C delta T)
% Adjacent to Crystal River Nuclear Power Plant, Crystal River, Florida, USA
% Homer, M. and W.M. Kemp. Unpublished Ms. See also Ulanowicz, R.E.
% 1986. Growth and Development: Ecosystems Phenomenology. Springer,
% New York. pp 69-79.
% transformed from SCOR format by Scor2net 15.7.2003
*partition ECO types / CrystalD
*vertices 24
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
2
3
4
5

*network CrystalD
*vertices 24
1 "microphytes"
2 "macrophytes"
3 "zooplankton"
4 "benthic invertebrates"
5 "stingray"
6 "bay anchovy"
7 "catfish"
8 "needlefish"
9 "sheepshead killifish"
10 "goldspotted killifish"
11 "gulf killifish"
12 "longnosed killifish"
13 "molly"
14 "silverside"
15 "moharra"
16 "pinfish"
17 "spot"
18 "black drum"
19 "red drum"
20 "mullet"
21 "detritus"
22 "Input"
23 "Output"
24 "Respiration"
*arcs
22 2 5488.00
22 16 0.02
2 23 166.00
3 23 32.40
4 23 33.55
6 23 0.75
7 23 0.02
8 23 0.01
10 23 0.10
11 23 0.73
12 23 0.69
13 23 0.05
14 23 0.05
15 23 0.25
16 23 0.09
17 23 0.02
18 23 0.41
19 23 0.07
20 23 1.32
21 23 616.51
2 24 2166.00
3 24 31.30
4 24 681.00
5 24 0.04
6 24 17.12
7 24 0.12
8 24 0.23
9 24 0.19
10 24 0.26
11 24 1.39
12 24 1.92
13 24 0.12
14 24 0.32
15 24 0.38
16 24 0.18
17 24 0.04
18 24 1.01
19 24 0.22
20 24 10.01
21 24 2087.50
1 9 0.12
1 10 0.10
1 13 0.35
1 20 5.73
1 21 319.00
2 21 3156.00
3 6 13.60
3 10 0.07
3 14 0.33
3 15 0.40
3 21 78.10
4 6 2.10
4 7 0.17
4 9 0.04
4 10 0.19
4 11 1.71
4 12 3.48
4 14 0.49
4 15 0.28
4 16 0.09
4 17 0.07
4 18 1.78
4 19 0.36
4 20 17.19
4 21 742.60
5 21 0.01
6 5 0.04
6 8 0.24
6 11 0.37
6 16 0.23
6 21 4.69
7 21 0.03
8 21 0.06
9 11 0.01
9 21 0.18
10 11 0.01
10 21 0.21
11 11 0.01
11 21 0.54
12 11 0.17
12 21 0.70
13 21 0.18
14 11 0.33
14 21 0.18
15 21 0.16
16 21 0.07
17 21 0.01
18 21 0.36
19 21 0.07
20 5 0.01
20 8 0.06
20 11 0.06
20 21 11.46
21 3 117.15
21 4 1485.10
21 6 7.74
21 9 0.22
21 10 0.22
21 14 0.06
21 15 0.11

*vector bio-masses / CrystalD
*vertices 24
335.0
280000.0
261.0
11258.0
4.0
378.0
9.6
12.0
6.8
8.6
60.0
83.0
4.7
14.0
14.0
11.0
1.0
68.0
15.6
868.0
462000.0
0.0
0.0
0.0

1,141 changes: 1,141 additions & 0 deletions data/pajek/Everglades.paj

Large diffs are not rendered by default.

2,509 changes: 2,509 additions & 0 deletions data/pajek/Florida.paj

Large diffs are not rendered by default.

171 changes: 171 additions & 0 deletions data/pajek/Maspalomas.paj
Original file line number Diff line number Diff line change
@@ -0,0 +1,171 @@
% Web 39 Charca de Maspalomas
% from datall.zip from http://www.cbl.cees.edu/~ulan/ntwk/network.html
% Charca de Maspalomas, Gran Canaria
% Almunia, J., G. Basterretxea, J. Aristegui, and R.E. Ulanowicz. 1999.
% Benthic- Pelagic switching in a coastal subtropical lagoon. Estuarine,
% Coastal and Shelf Science 49:363-384.
% transformed from SCOR format by Scor2net 15.7.2003
*partition ECO types / Maspalomas
*vertices 24
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
2
2
2
3
4
5

*network Maspalomas
*vertices 24
1 "Cyanobacteria"
2 "Eukaryotic Phyto"
3 "Chara globularis"
4 "Ruppia Maritima"
5 "Cladophora"
6 "Periphyton"
7 "Pelagic Bacteria"
8 "Microzooplankton"
9 "Mesozooplankton"
10 "Macrozooplankton"
11 "Benthic Microfauna"
12 "Benthic Suspension Feeder"
13 "Benthic Deposit Feeders"
14 "Benthic Invertebrate Car."
15 "Liza Aurata"
16 "Gallinula chloropus"
17 "Diplodus Sargus"
18 "Dicentratus punctatus"
19 "DOC"
20 "Suspended POC"
21 "Sedimented POC"
22 "Input"
23 "Output"
24 "Respiration"
*arcs
22 1 552615.0
22 2 552615.0
22 3 46400.0
22 4 290000.0
22 5 11600.0
22 6 33000.0
16 23 25000.0
19 23 1261.0
21 23 471733.0
1 24 110522.0
2 24 110522.0
3 24 4640.0
4 24 29000.0
5 24 1160.0
6 24 3300.0
7 24 28238.0
8 24 100700.0
9 24 205822.0
10 24 89270.0
11 24 49336.0
12 24 46127.0
13 24 93245.0
14 24 30529.0
15 24 12778.0
16 24 21643.0
17 24 39007.0
18 24 12397.0
1 8 348936.0
1 12 60000.0
1 20 33157.0
2 9 286044.0
2 12 50000.0
2 19 72892.0
2 21 33157.0
3 15 18560.0
3 21 23200.0
4 16 58000.0
4 21 203000.0
5 15 4640.0
5 21 5800.0
6 15 2357.0
6 16 14143.0
6 21 13200.0
7 8 13883.0
7 20 16561.0
8 9 293385.0
8 12 3757.0
8 20 5023.0
9 10 207784.0
9 20 205823.0
9 21 30000.0
10 17 35438.0
10 18 23805.0
10 21 89271.0
11 13 64137.0
11 21 215435.0
12 21 47665.0
12 17 59965.0
13 14 101762.0
13 15 8519.0
13 17 2420.0
13 18 8519.0
13 21 343034.0
14 17 39687.0
14 21 31546.0
15 17 16613.0
15 21 21723.0
16 21 25500.0
17 21 131233.0
18 17 16117.0
18 21 21810.0
19 7 58682.0
19 8 40046.0
20 9 70000.0
20 10 30000.0
20 12 40000.0
20 19 27097.0
20 21 93467.0
21 11 328908.0
21 13 493362.0
21 15 17038.0
21 18 18000.0

*vector bio-masses / Maspalomas
*vertices 24
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
0.0
0.0
0.0

354 changes: 354 additions & 0 deletions data/pajek/Michigan.paj
Original file line number Diff line number Diff line change
@@ -0,0 +1,354 @@
% Web 47 Lake Michigan Control network, A. Krause & D. Mason, Mich State Univ. 02
% from datall.zip from http://www.cbl.cees.edu/~ulan/ntwk/network.html
% Lake Michigan Control network
% Krause, A. and D. Mason. (In preparation.) A. Krause, PhD.
% Dissertation, Michigan State University. Ann Arbor, MI. USA
% transformed from SCOR format by Scor2net 15.7.2003
*partition ECO types / Michigan
*vertices 39
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
2
3
4
5

*network Michigan
*vertices 39
1 "Flagellates"
2 "Blue-greenGree"
3 "Diatoms"
4 "Rotifers"
5 "Cyclopoids"
6 "Calanoids"
7 "Cladocerans"
8 "Leptodora"
9 "Bythotrephes"
10 "Diporeia"
11 "Mysis"
12 "Oligoch/Chiron"
13 "Sphae/Gast"
14 "Zebra mussels"
15 "Benthic microin"
16 "Other fish"
17 "Alewife"
18 "Bloater"
19 "Rainbow smelt"
20 "Slimy sculpin"
21 "Deepwater sculp"
22 "Lake Whitefish"
23 "Yellow perch"
24 "Juv. Brown trou"
25 "Juv. Steelhead"
26 "Juv. Coho"
27 "Juv. Chinook"
28 "Juv. Lake Trout"
29 "Burbot"
30 "Brown trout"
31 "Steelhead"
32 "Coho"
33 "Chinook"
34 "Lake trout"
35 "Sea lamprey"
36 "Detritus"
37 "Input"
38 "Output"
39 "Respiration"
*arcs
37 1 2.723458E+3
37 2 2.115243E+2
37 3 8.306155E+3
37 9 1.000000E-8
37 14 1.000000E-8
9 38 1.000000E-8
14 38 1.000000E-8
18 38 1.400329E-2
19 38 1.924686E-1
20 38 2.344286E-2
21 38 3.793669E-2
22 38 4.799024E-2
23 38 1.281846E-2
29 38 2.078146E-3
30 38 4.997260E-3
31 38 4.986396E-3
32 38 7.983812E-3
33 38 1.994299E-2
34 38 5.004168E-3
36 38 7.584167E+3
4 39 9.031825E+1
5 39 4.733505E+2
6 39 1.350784E+3
7 39 3.170392E+2
8 39 2.727899E+0
10 39 4.223998E+2
11 39 6.702310E+1
12 39 6.920930E+2
13 39 3.113215E+1
15 39 9.474703E+1
16 39 1.867121E+1
17 39 3.027174E+1
18 39 4.407337E+1
19 39 2.160244E+0
20 39 7.228214E-1
21 39 1.494107E+1
22 39 2.008591E+0
23 39 4.239952E-2
24 39 4.157180E-3
25 39 3.149428E-2
26 39 5.950275E-4
27 39 1.579224E-1
28 39 1.722205E-1
29 39 1.246887E-2
30 39 9.394848E-2
31 39 1.456027E-1
32 39 3.263383E-1
33 39 9.881751E-1
34 39 1.611342E-1
1 4 3.681287E+1
1 5 2.201531E+2
1 6 7.346722E+2
1 7 1.107366E+2
1 10 1.256324E+2
1 11 4.923249E+0
1 13 7.301370E+0
1 16 5.490278E-1
1 36 1.482677E+3
2 4 1.826167E+0
2 5 7.532688E+0
2 6 1.822466E+1
2 7 3.662734E+1
2 10 6.233169E+1
2 11 4.885446E+0
2 13 7.245661E+0
2 16 5.450497E-1
2 36 7.230560E+1
3 4 5.314396E+1
3 5 4.497071E+2
3 6 1.078875E+3
3 7 5.512479E+2
3 10 3.752408E+2
3 11 4.902088E+0
3 13 7.270131E+0
3 16 5.400097E-1
3 36 5.785228E+3
4 5 3.809107E+0
4 36 8.922894E+1
5 8 1.252102E+0
5 11 2.437598E+1
5 16 2.720221E+0
5 17 2.036166E+0
5 18 1.198097E+0
5 19 1.850150E-1
5 23 7.000569E-3
5 36 2.516134E+2
6 8 1.187038E+0
6 11 1.904461E+1
6 16 2.657084E+0
6 17 1.192638E+1
6 18 1.755056E+0
6 19 3.610115E-1
6 23 7.000223E-3
6 36 4.440501E+2
7 8 1.218066E+0
7 11 2.444533E+1
7 16 7.353400E+0
7 17 1.220866E+1
7 18 1.495481E+1
7 19 1.112060E+0
7 22 1.370074E-1
7 23 7.000381E-3
7 36 3.568644E+2
8 17 3.601187E-2
8 18 5.301748E-2
8 23 3.000989E-3
8 36 8.372760E-1
10 16 5.464464E+0
10 17 1.391018E+1
10 18 3.611906E+1
10 19 5.570472E-1
10 20 9.000763E-1
10 21 1.305711E+1
10 22 2.058175E+0
10 23 1.400119E-2
10 29 1.000085E-3
10 36 1.311831E+2
11 17 4.350526E-1
11 18 6.389772E+0
11 19 3.940476E-1
11 20 1.060128E-1
11 21 2.132258E+0
11 29 1.000121E-3
11 36 2.077651E+1
12 12 4.838264E+1
12 16 2.765522E+0
12 21 5.084799E+0
12 22 2.781532E-1
12 23 1.800991E-2
12 36 2.073792E+2
13 16 3.342090E+0
13 22 3.050995E-1
13 36 1.367746E+1
15 10 1.245684E+1
15 11 4.882682E+0
15 36 4.865372E+1
16 16 2.431720E-1
16 19 1.031730E+0
16 23 1.300920E-2
16 24 3.002124E-3
16 25 1.000708E-2
16 26 3.002124E-4
16 27 4.202974E-2
16 28 6.104319E-2
16 29 4.002832E-3
16 30 2.902053E-2
16 31 4.703327E-2
16 32 1.441019E-1
16 33 6.604673E-2
16 34 2.001416E-2
16 36 7.160066E+0
17 24 3.015314E-3
17 25 4.321950E-2
17 26 5.025523E-4
17 27 1.779035E-1
17 28 9.749515E-2
17 29 7.035732E-3
17 30 1.266432E-1
17 31 1.527759E-1
17 32 3.779193E-1
17 33 1.027217E+0
17 34 1.055360E-1
17 36 8.161448E+0
18 24 3.000706E-4
18 25 3.000706E-3
18 26 1.000235E-4
18 27 1.100259E-2
18 28 2.500588E-2
18 29 2.000471E-3
18 30 7.001647E-3
18 32 2.400565E-2
18 33 2.660626E-1
18 34 4.000941E-2
18 35 2.000471E-4
18 36 1.600377E+1
19 24 9.575551E-4
19 25 5.745331E-3
19 26 2.872666E-4
19 27 2.393888E-2
19 28 2.776910E-2
19 29 2.872665E-3
19 30 1.723599E-2
19 31 3.255688E-2
19 32 2.681154E-2
19 33 2.221528E-1
19 34 2.298132E-2
19 36 9.048896E-1
20 28 1.758214E-2
20 29 9.767857E-4
20 34 1.367500E-2
20 36 2.275911E-1
21 28 2.396001E-2
21 29 1.996668E-3
21 34 1.896834E-2
21 36 5.250238E+0
22 36 7.218531E-1
23 36 1.380449E-2
24 36 3.117885E-3
25 36 3.047834E-2
26 36 5.950275E-4
27 36 9.695235E-2
28 28 1.493241E-2
28 36 8.063501E-2
29 35 1.039073E-4
29 36 6.234436E-3
30 36 8.095561E-2
31 36 8.177689E-2
32 36 2.385164E-1
33 36 5.733609E-1
34 35 2.001667E-3
34 36 5.304418E-2
35 36 2.305622E-3
36 4 9.157331E+1
36 5 7.553650E+1
36 7 3.672818E+1
36 10 5.000247E+1
36 11 9.798384E+0
36 12 9.076187E+2
36 13 2.663964E+1
36 15 1.607403E+2
36 16 1.365750E+0

*vector bio-masses / Michigan
*vertices 39
1.028552E+1
2.181199E+0
2.441444E+1
4.581332E-1
7.557615E+0
1.826558E+1
7.327398E+0
1.350445E-1
1.000000E-9
3.131966E+1
3.931475E+0
1.913253E+1
2.002653E+0
0.000000E+0
1.605882E+0
1.365966E+0
1.717724E+0
4.399035E+0
4.692020E-1
7.814285E-2
1.975703E+0
1.809632E-1
2.465088E-2
4.157179E-3
4.978129E-2
5.950275E-4
9.895137E-2
1.025359E-1
7.273509E-3
3.598027E-2
5.684491E-2
4.091704E-2
1.146722E-1
5.604668E-2
4.611243E-4
6.967728E+1
0.000000E+0
0.000000E+0
0.000000E+0

553 changes: 553 additions & 0 deletions data/pajek/Mondego.paj

Large diffs are not rendered by default.

341 changes: 341 additions & 0 deletions data/pajek/Narragan.paj
Original file line number Diff line number Diff line change
@@ -0,0 +1,341 @@
% Web 42 Narragansett Bay Model, Aug 1994. (mgC/m2/year) 0
% from datall.zip from http://www.cbl.cees.edu/~ulan/ntwk/network.html
% Monaco, M.E. and R.E. Ulanowicz. 1997. Comparative ecosystem trophic
% structure of three U.S. Mid-Atlantic estuaries. Mar. Ecol. Prog. Ser.
% 161:239-254.
% transformed from SCOR format by Scor2net 14.7.2003
*partition ECO types / Narragansett
*vertices 35
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
2
3
4
5

*network Narragansett
*vertices 35
1 "Bluefish"
2 "Striped Bass"
3 "Winter Flounder"
4 "Windowpane"
5 "Scup"
6 "Tautog"
7 "Dogfish"
8 "Skates"
9 "Longfin Squid"
10 "Butterfish"
11 "Menhaden"
12 "Bay Anchovy"
13 "Atl Silversides"
14 "Mummichog"
15 "Hard Clam"
16 "Cancer Crabs"
17 "Am. Lobster"
18 "Softshell Clam"
19 "Ben Macrofauna"
20 "Ben Meiofauna"
21 "Shrimp(Pal,Crg)"
22 "Ctenophores"
23 "Fish Larvae"
24 "Mesozooplankton"
25 "Microzooplankto"
26 "Hetero Microflag"
27 "Pelag Bacteria"
28 "SusPoc Bacteria"
29 "SedPOC Bacteria"
30 "Benthic Alage"
31 "Phytoplankton"
32 "Detritus"
33 "Input"
34 "Output"
35 "Respiration"
*arcs
33 30 144760.00000
33 31 544635.60000
33 32 4450.00000
1 34 42.00000
2 34 42.00000
3 34 66.00000
4 34 3.77000
5 34 116.30000
6 34 3.94000
7 34 0.51000
8 34 6.66000
9 34 8.36000
10 34 8.68000
11 34 11.00000
12 34 0.00300
13 34 14.70000
14 34 14.70000
15 34 61.60000
16 34 1.52000
17 34 70.00000
18 34 0.15600
22 34 24.34000
23 34 3.84000
24 34 347.40000
25 34 83.26000
26 34 20.70000
27 34 230.00000
28 34 46.00000
29 34 138.00000
31 34 874.00000
32 34 75594.63000
1 35 321.26490
2 35 98.13600
3 35 391.87000
4 35 106.33000
5 35 504.00000
6 35 475.65000
7 35 163.80000
8 35 455.00000
9 35 166.32000
10 35 368.00000
11 35 406.00000
12 35 112.00000
13 35 874.80000
14 35 1200.00000
15 35 2952.00000
16 35 1768.50000
17 35 470.40000
18 35 1073.60000
19 35 15164.00000
20 35 35796.00000
21 35 19600.00000
22 35 1484.00000
23 35 136.94000
24 35 111773.30000
25 35 19548.00000
26 35 49409.99000
27 35 20000.00000
28 35 11500.00000
29 35 33360.00000
30 35 51700.00000
31 35 234852.00000
1 32 305.00380
2 1 20.04806
2 7 10.92000
2 32 57.31594
3 2 6.85260
3 7 10.92000
3 32 120.35740
4 7 10.92000
4 32 33.98000
5 2 9.13680
5 32 170.56320
6 1 60.14418
6 2 11.42100
6 7 6.55200
6 32 197.29280
7 32 54.09000
8 7 10.92000
8 32 177.42000
9 1 46.77881
9 7 10.92000
9 9 15.62000
9 32 64.40119
10 1 167.06720
10 2 57.10500
10 7 43.68000
10 9 71.85200
10 32 387.61580
11 1 233.89400
11 2 22.84200
11 9 15.62000
11 32 180.64400
12 1 33.41343
12 2 27.41040
12 9 15.62000
12 32 51.55317
13 1 33.41343
13 2 11.42100
13 9 21.86800
13 16 137.55000
13 17 43.20000
13 32 294.04760
14 1 40.09612
14 2 20.55780
14 3 59.60000
14 7 4.36800
14 16 137.55000
14 17 43.20000
14 32 479.92810
15 2 22.84200
15 3 11.92000
15 32 1391.63800
16 1 33.41343
16 2 22.84200
16 3 17.88000
16 5 80.00000
16 7 21.84000
16 8 65.00000
16 17 172.80000
16 32 567.20460
17 6 113.25000
17 32 210.35000
18 16 137.55000
18 17 43.20000
18 32 697.49400
19 2 15.98940
19 3 357.60000
19 4 20.15000
19 5 480.00000
19 6 453.00000
19 7 21.84000
19 8 390.00000
19 14 400.00000
19 16 687.75000
19 17 302.40000
19 32 17387.27000
20 4 9.30000
20 5 80.00000
20 16 550.20000
20 19 3568.00000
20 21 4200.00000
20 32 12796.50000
21 3 149.00000
21 4 125.55000
21 5 160.00000
21 6 188.75000
21 7 21.84000
21 8 195.00000
21 9 171.82000
21 10 607.20000
21 14 400.00000
21 16 550.20000
21 17 259.20000
21 19 3568.00000
21 32 16003.44000
22 7 43.68000
22 10 220.80000
22 32 1407.18000
23 22 318.00000
23 32 159.12000
24 10 165.60000
24 12 216.00000
24 13 1287.90000
24 14 800.00000
24 15 444.00000
24 19 7136.00000
24 20 5700.00000
24 21 8400.00000
24 22 2544.00000
24 23 247.16000
24 24 21146.30000
24 32 51255.34000
25 15 444.00000
25 18 390.40000
25 20 5700.00000
25 22 318.00000
25 23 61.79000
25 24 21146.30000
25 32 17468.25000
26 25 26064.00000
26 32 77505.30000
27 25 13032.00000
27 26 91800.00000
27 32 274938.00000
28 26 22950.00000
28 32 45504.00000
29 26 22950.00000
29 32 691152.00000
30 14 200.00000
30 15 888.00000
30 19 3568.00000
30 24 21146.30000
30 32 67257.70000
31 10 110.40000
31 11 783.00000
31 13 143.10000
31 15 2220.00000
31 18 1561.60000
31 19 10704.00000
31 20 11400.00000
31 21 12600.00000
31 23 308.95000
31 24 126877.80000
31 25 13032.00000
31 32 129389.10000
32 11 87.00000
32 12 24.00000
32 14 200.00000
32 15 444.00000
32 16 550.20000
32 19 7136.00000
32 20 34200.00000
32 21 16800.00000
32 24 21146.30000
32 25 13032.00000
32 26 15300.00000
32 27 400000.00000
32 28 80000.00000
32 29 747600.00000

*vector bio-masses / Narragansett
*vertices 35
251.00
141.00
149.00
31.00
160.00
151.00
84.00
130.00
44.00
184.00
145.00
40.00
135.00
200.00
300.00
393.00
120.00
244.00
4460.00
1140.00
1400.00
106.00
16.70
1510.45
362.00
90.00
1000.00
200.00
600.00
330.00
3800.00
253400.00
0.00
0.00
0.00

129 changes: 129 additions & 0 deletions data/pajek/Rhode.paj
Original file line number Diff line number Diff line change
@@ -0,0 +1,129 @@
% Web 32 Rhode River Watershed - Water Budget 3/81 - 2/82; D. Correll Et Al.
% from datall.zip from http://www.cbl.cees.edu/~ulan/ntwk/network.html
% Water exchanges in the Rhode River Watershed, Anne Arundel County, Maryland USA.
% Correll, D. (Unpublished manuscript) Smithsonian Institute, Chesapeake
% Bay Center for Environmental Research, Edgewater, Maryland 21037-0028 USA.
% transformed from SCOR format by Scor2net 15.7.2003
*partition ECO types / Rhode
*vertices 20
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
3
4
5

*network Rhode
*vertices 20
1 "crop land"
2 "pasture land"
3 "upland forest"
4 "riparian forest adj. crop"
5 "riparian forest adj. past"
6 "riparian forest adj. upla"
7 "flooded swamp forest"
8 "herbaceous wetland"
9 "floodplain forest"
10 "main fork"
11 "low marsh adj. north fork"
12 "low marsh adj. main fork"
13 "north fork"
14 "muddy creek"
15 "mud flat"
16 "high marsh"
17 "low marsh adj. muddy cree"
18 "Input"
19 "Output"
20 "Respiration"
*arcs
18 1 83170.0
18 2 20040.0
18 3 6630.0
18 4 5170.0
18 5 2800.0
18 6 4850.0
18 7 67.0
18 8 67.0
18 9 660.0
18 11 44.5
18 12 12.1
18 14 30.0
18 15 43850.0
18 16 391.0
18 17 172.0
1 19 44900.0
2 19 9120.0
15 19 44500.0
1 4 20500.0
2 5 460.0
3 6 540.0
4 7 3520.0
4 10 33.7
4 13 1080.0
4 15 179.0
5 7 282.0
5 13 378.0
5 15 1.0
6 7 269.0
6 10 17.6
6 13 413.0
6 14 83.8
6 15 130.0
7 8 630.0
7 9 100.0
7 10 2880.0
8 10 700.0
9 10 30.0
10 8 317.0
10 12 609.0
10 14 4000.0
11 13 2200.0
12 10 601.0
13 11 2230.0
13 14 2500.0
14 10 650.0
14 13 600.0
14 15 8000.0
14 17 8670.0
15 14 2800.0
15 16 8760.0
16 15 9600.0
17 14 8550.0

*vector bio-masses / Rhode
*vertices 20
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
1.0
0.0
0.0
0.0

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