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Single-Cell RNA Seq Example #265

Merged
merged 37 commits into from
Sep 20, 2023
Merged

Single-Cell RNA Seq Example #265

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e21b58a
data processing code
agrawalraj Aug 29, 2023
c9801c7
model doesnt compile yet
agrawalraj Aug 30, 2023
e8bff85
fixed dimensions but module naming issue
agrawalraj Aug 30, 2023
22773f4
before switching to interaction version of model
agrawalraj Aug 31, 2023
1fc3890
presentation w/ alvin
agrawalraj Aug 31, 2023
fc0522f
cleaned up summary stats section and focus on one drug
agrawalraj Sep 1, 2023
6869814
before switching to multiworld for ate
agrawalraj Sep 5, 2023
11cc873
eli shape corrections
agrawalraj Sep 5, 2023
ede7753
uncomitted changes w/ eli re. shapes
agrawalraj Sep 5, 2023
12e21f7
eli's fix of counterfactual
agrawalraj Sep 7, 2023
3558655
clean up
agrawalraj Sep 7, 2023
5e59c18
rewording
agrawalraj Sep 7, 2023
52a7049
change of notation and reran notebook
agrawalraj Sep 7, 2023
e273e9a
removed old sentence
agrawalraj Sep 7, 2023
733a6e1
fixed typo
agrawalraj Sep 7, 2023
f457bc9
removed some masking and redundancy
agrawalraj Sep 8, 2023
50f2fad
made dropout a function of confounders too
agrawalraj Sep 8, 2023
a3f3586
Ra aq scrna (#263)
qinqian Sep 13, 2023
3fdd857
Merge branch 'master' of github.com:BasisResearch/causal_pyro into ra…
agrawalraj Sep 13, 2023
0801eef
cleaned up notebook and fixed some bugs
agrawalraj Sep 14, 2023
c86cae4
fixed some bugs and cleaned up references and some notation
agrawalraj Sep 14, 2023
7ea4ac0
fixed drug typo and removed treatment mask
agrawalraj Sep 14, 2023
a987853
query models, add latent factor per cell
agrawalraj Sep 15, 2023
c045fda
removed old file, did not finish running on all genes so moving to gcp
agrawalraj Sep 16, 2023
5e54d32
Merge branch 'master' of github.com:BasisResearch/causal_pyro into ra…
agrawalraj Sep 16, 2023
9911173
cleaned up some more text
agrawalraj Sep 17, 2023
bcb7110
target genes specified, kernel crashes on last fig
agrawalraj Sep 19, 2023
d6a0e54
fixed missing ref
agrawalraj Sep 19, 2023
29922c1
reducted num samples to fix memory issue
agrawalraj Sep 19, 2023
461ab6e
fixed typo
agrawalraj Sep 19, 2023
ca2734d
updated target genes w/ chip targets and fixed plotting bug
agrawalraj Sep 19, 2023
b3221f7
added alvins descriptions + some rewriting
agrawalraj Sep 20, 2023
8b6d980
fixed some typos
agrawalraj Sep 20, 2023
c377331
added pca discussion
agrawalraj Sep 20, 2023
67367d8
forgot to save when committing
agrawalraj Sep 20, 2023
940affd
Merge branch 'master' of github.com:BasisResearch/causal_pyro into ra…
agrawalraj Sep 20, 2023
08c85c2
fixed typo
agrawalraj Sep 20, 2023
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