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Add case study notebooks #20

Merged
merged 85 commits into from
Jan 26, 2024
Merged

Add case study notebooks #20

merged 85 commits into from
Jan 26, 2024

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cthoyt
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@cthoyt cthoyt commented Jan 17, 2024 •
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This PR represents the state of the case studies for the initial submission to ISMB

srtaheri and others added 30 commits October 27, 2023 15:40
@srtaheri
build skeleton of case studies in paper
3e0d659
@srtaheri
build initial skeleton of large sars case study data generation
1cc39e4
@srtaheri
data generation for large sars cov example
1856bf3
@srtaheri
build initial skeleton for the case studies in the paper
597933f
@srtaheri
added discriptioon to the example
390eb09
@srtaheri
worked on the skeleton of case studies
f75de6e
@srtaheri
added necessary function names to init
0eff5a7
@srtaheri
changed data to discretized data
b8c5c7e
@srtaheri
filled out steps of the workflow for case studies
8bfc260
@srtaheri
added steps of the workflow to sars cov example
a8c739f
@srtaheri
added steps of the workflow to covid case study
afca781
@srtaheri
worked on CI tests for case studies
9004581
@srtaheri
added sars discrete data generator
824cf61
@srtaheri
worked on case studies notebook
c2bbd8f
@srtaheri
create discrete data for Sars case study
ede7eb6
@srtaheri
ran and got results from all case studies, all steps of workflow
f26ef5d
@srtaheri
added relevant data and images
bbc186c
@srtaheri
convert single long line into multiple shorter ones for Tsignaling ca…
019460f 
…se study
@srtaheri
small changes
09ef7cf
@pnavada
Adding sars_cov2 data
2e94f60
@srtaheri
small changes
76f1899
@srtaheri
Merge branch 'notebooks' of https://github.com/y0-causal-inference/el…
bf169d0 
…iater into notebooks
@pnavada
Modified notebooks to import functions from eliater
791a9ea
@srtaheri
modified notebooks
558b053
@pnavada
Resolving conflict from origin
fa1526d
@pnavada
notebook changes
8b59e9e
@srtaheri
add evaluation criterion to SARS case study
ecf6e9c
@srtaheri
verfied the results in EColi case study
18ac602
@srtaheri
added evaluation criterion
b06ea65
@srtaheri
added evaluation to the motivating example
cf4d8f0
cthoyt
cthoyt commented Jan 24, 2024
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@cthoyt cthoyt left a comment

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@srtaheri @pnavada could you please add explanations with data files like these when you commit them?

@cthoyt cthoyt marked this pull request as ready for review January 26, 2024 08:19
@cthoyt cthoyt merged commit f2e2418 into main Jan 26, 2024
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@cthoyt cthoyt deleted the notebooks branch January 26, 2024 08:29
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3 participants
@cthoyt @srtaheri @pnavada