diff --git a/HNX_Paper/paper.bib b/HNX_Paper/paper.bib index 03e4d36d..b0bbd692 100644 --- a/HNX_Paper/paper.bib +++ b/HNX_Paper/paper.bib @@ -1,6 +1,7 @@ @inproceedings{Joslyn2020DNS, address = {Cham}, + doi={10.1007/978-3-030-48478-1_1}, author = {Joslyn, Cliff A. and Aksoy, Sinan and Arendt, Dustin and Firoz, Jesun and Jenkins, Louis and Praggastis, Brenda and Purvine, Emilie and Zalewski, Marcin}, booktitle = {Algorithms and Models for the Web Graph}, editor = {Kami{\'{n}}ski, Bogumi{\l} and Pra{\l}at, Pawe{\l} and Szufel, Przemys{\l}aw}, @@ -12,6 +13,7 @@ @inproceedings{Joslyn2020DNS @article{Molnar2022Application, title={The application of directed hyper-graphs for analysis of models of information systems}, + doi={10.3390/math10050759}, author={Moln{\'a}r, B{\'a}lint and Bencz{\'u}r, Andr{\'a}s}, journal={Mathematics}, volume={10}, @@ -24,6 +26,7 @@ @article{Molnar2022Application /// Tony's work to quickly compute overlap sizes @inproceedings{Liu2021Parallel, title={Parallel algorithms for efficient computation of high-order line graphs of hypergraphs}, + doi={10.1109/hipc53243.2021.00045}, author={Liu, Xu T and Firoz, Jesun and Lumsdaine, Andrew and Joslyn, Cliff and Aksoy, Sinan and Praggastis, Brenda and Gebremedhin, Assefaw H}, booktitle={2021 IEEE 28th International Conference on High Performance Computing, Data, and Analytics (HiPC)}, pages={312--321}, @@ -33,6 +36,7 @@ @inproceedings{Liu2021Parallel @article{Zhou2022Topological, title={Topological simplifications of hypergraphs}, + doi={10.1109/tvcg.2022.3153895}, author={Zhou, Youjia and Rathore, Archit and Purvine, Emilie and Wang, Bei}, journal={IEEE Transactions on Visualization and Computer Graphics}, year={2022}, @@ -41,6 +45,7 @@ @article{Zhou2022Topological @article{Aksoy2020Hypernetwork, title={Hypernetwork science via high-order hypergraph walks}, + doi={10.1140/epjds/s13688-020-00231-0}, author={Aksoy, Sinan G and Joslyn, Cliff and Marrero, Carlos Ortiz and Praggastis, Brenda and Purvine, Emilie}, journal={EPJ Data Science}, volume={9}, @@ -52,6 +57,7 @@ @article{Aksoy2020Hypernetwork @article{Pickard2023HAT, title={HAT: Hypergraph analysis toolbox}, + doi={10.1371/journal.pcbi.1011190}, author={Pickard, Joshua and Chen, Can and Salman, Rahmy and Stansbury, Cooper and Kim, Sion and Surana, Amit and Bloch, Anthony and Rajapakse, Indika}, journal={PLOS Computational Biology}, volume={19}, @@ -63,6 +69,7 @@ @article{Pickard2023HAT @misc{Berge1973Graphs, title={Graphs and {H}ypergraphs,(translated by {E}dward {M}inieka)}, + doi={10.1016/s0924-6509(09)x7013-3}, author={Berge, Claude}, year={1973}, publisher={American Elsevier, New York} @@ -70,6 +77,7 @@ @misc{Berge1973Graphs @book{Berge1984Hypergraphs, title={Hypergraphs: combinatorics of finite sets}, + doi={10.1016/s0924-6509(08)x7007-2}, author={Berge, Claude}, volume={45}, year={1984}, @@ -78,6 +86,7 @@ @book{Berge1984Hypergraphs @article{Feng2021, title={Hypergraph models of biological networks to identify genes critical to pathogenic viral response}, + doi={10.1186/s12859-021-04197-2}, author={Feng, Song and Heath, Emily and Jefferson, Brett and Joslyn, Cliff and Kvinge, Henry and Mitchell, Hugh D and Praggastis, Brenda and Eisfeld, Amie J and Sims, Amy C and Thackray, Larissa B and others}, journal={BMC bioinformatics}, volume={22}, @@ -87,20 +96,10 @@ @article{Feng2021 publisher={BioMed Central} } -@article{Pickard2023Hat, - title={HAT: Hypergraph analysis toolbox}, - author={Pickard, Joshua and Chen, Can and Salman, Rahmy and Stansbury, Cooper and Kim, Sion and Surana, Amit and Bloch, Anthony and Rajapakse, Indika}, - journal={PLOS Computational Biology}, - volume={19}, - number={6}, - pages={e1011190}, - year={2023}, - publisher={Public Library of Science San Francisco, CA USA} -} - // uses HNX vis capabilities @article{Vazquez2022Growth, title={Growth principles of natural hypergraphs}, + doi={10.48550/arXiv.2208.03103}, author={Vazquez, Alexei}, journal={arXiv preprint arXiv:2208.03103}, year={2022} @@ -108,6 +107,7 @@ @article{Vazquez2022Growth @article{Lotito2023Hypergraphx, title={Hypergraphx: a library for higher-order network analysis}, + doi={10.1093/comnet/cnad019}, author={Lotito, Quintino Francesco and Contisciani, Martina and De Bacco, Caterina and Di Gaetano, Leonardo and Gallo, Luca and Montresor, Alberto and Musciotto, Federico and Ruggeri, Nicol{\`o} and Battiston, Federico}, journal={Journal of Complex Networks}, volume={11}, @@ -119,6 +119,7 @@ @article{Lotito2023Hypergraphx @article{Praggastis2022SVD, title={The SVD of Convolutional Weights: A CNN Interpretability Framework}, + doi={10.48550/arXiv.2208.06894}, author={Praggastis, Brenda and Brown, Davis and Marrero, Carlos Ortiz and Purvine, Emilie and Shapiro, Madelyn and Wang, Bei}, journal={arXiv preprint arXiv:2208.06894}, year={2022} @@ -126,6 +127,7 @@ @article{Praggastis2022SVD @inproceedings{Joslyn2021, address = {Cham}, + doi={10.1007/978-3-030-67318-5_25}, author = {Joslyn, Cliff A. and Aksoy, Sinan G. and Callahan, Tiffany J. and Hunter, Lawrence E. and Jefferson, Brett and Praggastis, Brenda and Purvine, Emilie and Tripodi, Ignacio J.}, booktitle = {Unifying Themes in Complex Systems X}, editor = {Braha, Dan and de Aguiar, Marcus A. M. and Gershenson, Carlos and Morales, Alfredo J. and Kaufman, Les and Naumova, Elena N. and Minai, Ali A. and Bar-Yam, Yaneer}, @@ -204,6 +206,7 @@ @article{Landry2023 @inproceedings{Szufel2019, title={SimpleHypergraphs. jl—novel software framework for modelling and analysis of hypergraphs}, + doi={10.1007/978-3-030-25070-6_9}, author={Antelmi, Alessia and Cordasco, Gennaro and Kami{\'n}ski, Bogumi{\l} and Pra{\l}at, Pawe{\l} and Scarano, Vittorio and Spagnuolo, Carmine and Szufel, Przemyslaw}, booktitle={Algorithms and Models for the Web Graph: 16th International Workshop, WAW 2019, Brisbane, QLD, Australia, July 6--7, 2019, Proceedings 16}, pages={115--129}, diff --git a/HNX_Paper/paper.md b/HNX_Paper/paper.md index 0c06432a..0620f8ca 100644 --- a/HNX_Paper/paper.md +++ b/HNX_Paper/paper.md @@ -14,25 +14,23 @@ authors: orcid: 0000-0003-1344-0497 affiliation: "1" - name: Sinan Aksoy - orcid: 0000-0000-0000-0000 + orcid: 0000-0002-3466-3334 affiliation: "1" - name: Dustin Arendt - orcid: 0000-0000-0000-0000 + orcid: 0000-0003-2466-199X affiliation: "1" - name: Mark Bonicillo - orcid: 0000-0000-0000-0000 affiliation: "1" - name: Cliff Joslyn - orcid: 0000-0000-0000-0000 + orcid: 0000-0002-5923-5547 affiliation: "1" - name: Emilie Purvine - orcid: 0000-0000-0000-0000 + orcid: 0000-0003-2069-5594 affiliation: "1" - name: Madelyn Shapiro - orcid: 0000-0000-0000-0000 + orcid: 0000-0002-2786-7056 affiliation: "1" - name: Ji Young Yun - orcid: 0000-0000-0000-0000 affiliation: "1" affiliations: - name: Pacific Northwest National Laboratory, USA