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Dev #11

Merged
merged 25 commits into from
Nov 6, 2023
Merged

Dev #11

merged 25 commits into from
Nov 6, 2023

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adamcweiner
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adamcweiner and others added 25 commits June 19, 2023 15:49
@adamcweiner
condition model_s instead of having separate function for model_g1
20a5a0c
@adamcweiner
Add G2-phase cells for Step 1
7896f71
@adamcweiner
catch typo with cn_prior
e3c8e5d
@adamcweiner
fixing more bugs with G2-cells in step 1
c9974f6
@adamcweiner
model is running now
b6d9097
@adamcweiner
typo with weights during cn prior in step 3
4db24fb
@adamcweiner
add argument to rasterize scatterplots by default
6615cbc
@adamcweiner
plot confidence intervals as shaded areas for cell profiles
f1d8825
@adamcweiner
update plotting code for main figures
8540ba7
@adamcweiner
update functions for making extended data figs
2c7b723
@adamcweiner
update plotting of heatmaps
888e1fa
@adamcweiner
re-run all notebook tutorials to make sure they still work
829bb98
@adamcweiner
update colormaps
0b2c880
@adamcweiner
fix typo
b4981d1
@adamcweiner
Update README.md
7afd866
@adamcweiner
try reordering dockerfile to use docker layer caching
b26ed02
@adamcweiner
Merge branch 'dev' of github.com:shahcompbio/scdna_replication_tools …
35adfe2 
…into dev
@adamcweiner
revert to old dockerfile format
36f1b12
@adamcweiner
see if upgrading pip changes anything
cd6f007
@diljotgrewal
docker fixes
767f18a
@adamcweiner
Merge pull request #10 from shahcompbio/docker
7aaa3f9 
docker fixes
@adamcweiner
need to update pyBigWig to get scgenome functions to import
71a0086
@adamcweiner
update jax version
15e6316
@adamcweiner
removing jax dependency
ad7f711
@adamcweiner
removing numpyro
e1ba28f
@adamcweiner adamcweiner merged commit bde509b into main Nov 6, 2023
3 checks passed
@adamcweiner adamcweiner deleted the dev branch November 6, 2023 18:26
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2 participants
@adamcweiner @diljotgrewal