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improvements in phenotype calculation #88

Merged
merged 46 commits into from
Aug 6, 2024
Merged

improvements in phenotype calculation #88

merged 46 commits into from
Aug 6, 2024

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abearab
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@abearab abearab commented Aug 6, 2024 •
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continue #84

abearab added 30 commits August 2, 2024 13:44
@abearab
add text loc args
be12da5
@abearab
clearify formula
458ec45
@abearab
add docs
b7b6c65
@abearab
Merge branch 'master' into dev
4ccb610
@abearab
Merge branch 'master' into dev
a141d13
@abearab
mend
abb3be4
@abearab
update log10 count transformation
267f2d2 
move it to `phenostat.py` to only apply it on counts prior to test, close #82
@abearab
change test level
71d438e 
related to 0496c65
@abearab
mend
c7494da
@abearab
fix a bug
de1b743
@abearab
mend
fbe5e48
@abearab
add _averageBestN
1703d61 
related to #18
@abearab
mend
2cb9ca3
@abearab
mend
7129767
@abearab
mend
90e1fea
@abearab
update module organization
fd2e2ea
@abearab
add calcLog2e and clean up
aed1d1b
@abearab
code clean up
b89f636
@abearab
code clean up
031e65a
@abearab
mend
8ff66c8
@abearab
refactor adata to adat
5a90124 
to avoid overwritting data!
@abearab
major changes in runPhenoScore
3615e5f 
- redefine `calculateDelta`
- updates related to #18
@abearab
fix a bug
c6629d0 
related to #18
@abearab
add target column
1716c13
@abearab
add buildPhenotypeData
7a03f61
@abearab
mend
2cd7058
@abearab
mend
4acbcdb
@abearab
draft buildPhenotypeData
c2ec284
@abearab
add compareByReplicates
cb5745c
@abearab
add compareByReplicates
8944f76
@abearab abearab added bug Something isn't working enhancement New feature or request analysis A data analysis step or task labels Aug 6, 2024
@abearab abearab self-assigned this Aug 6, 2024
abearab
abearab commented Aug 6, 2024
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LGTM

@abearab abearab marked this pull request as ready for review August 6, 2024 12:37
@abearab abearab merged commit e8488b5 into master Aug 6, 2024
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Implement simple stats.ttest_ind test Sort and find top n guide per target
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