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jbloomlab
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dms_variants
Analyze deep mutational scanning of barcoded variants.
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add outer flank regions for `IlluminaBarcodeParser`
#88
jbloom
closed
7 months ago
0
update to use newer versions of dependencies
#87
jbloom
closed
9 months ago
0
scipy.flip() is deprecated
#86
ckikawa
closed
9 months ago
0
deprecation warning
#85
jbloom
opened
1 year ago
4
add `primary_target_only` to `prob_escape` (becomes version 1.4.3)
#84
jbloom
closed
1 year ago
0
fix failures of `flake8` and tests due to changed versions
#83
jbloom
closed
2 years ago
0
Checks failing on pull request
#82
caelanradford
closed
2 years ago
0
adds ftol as option to fit_models
#81
caelanradford
closed
2 years ago
3
Optionally enforce zero observed phenotype for WT in global epistasis model
#80
wsdewitt
closed
2 years ago
2
fix doc typo
#79
jbloom
closed
2 years ago
0
prob_escape example typo
#78
Bernadetadad
closed
2 years ago
1
add `prob_escape` (version 1.4)
#77
jbloom
closed
2 years ago
0
`black` format code and test on Travis
#76
jbloom
closed
2 years ago
0
in-frame deletions as a valid character
#75
jbloom
closed
2 years ago
0
added `inverse_simpson_index (v 1.2.0)
#74
jbloom
closed
2 years ago
0
Errors while installing dms_variants 1.1.0 with python 3.8
#73
yeli7068
closed
2 years ago
3
pip install issue
#72
Bernadetadad
closed
3 years ago
2
added `allowed_aa_muts` to `simulate_CodonVariantTable`
#71
jbloom
closed
3 years ago
0
version 1.0
#70
jbloom
closed
3 years ago
0
fix plotting bugs
#69
jbloom
closed
3 years ago
1
plotCumulVariantCounts and plotNumCodonMutsByType plotting errors
#68
Caleb-Carr
closed
3 years ago
0
Barcodes must match case found in sequencing files to be counted
#67
caelanradford
closed
3 years ago
2
fix bug in `extra_cols` for `from_variant_count_df`
#66
jbloom
closed
3 years ago
0
extra_cols in
#65
ajgreaney
closed
3 years ago
1
add `extra_cols` to `CodonVariantTable.from_variant_count_df`
#64
jbloom
closed
3 years ago
0
fix version, it is 0.8.7
#63
jbloom
closed
3 years ago
0
Fix rarefy bcs
#62
khdcrawford
closed
3 years ago
0
rarefyBarcodes maxpoints dtype incompatibility
#61
khdcrawford
closed
3 years ago
2
remove some unlikely use cases from tests / docs
#60
jbloom
closed
3 years ago
0
fix compile args for windows
#59
jbloom
closed
3 years ago
0
pip install dms_variants #failed fix: comment out -Wno-error=declaration-after-statement in setup.py
#58
animesh
closed
3 years ago
2
added `dms_variants.pdb_utils.reassign_b_factor`
#57
jbloom
closed
4 years ago
0
classify aa muts as single nt accessible (v0.8.4)
#56
jbloom
closed
4 years ago
0
unpin `plotnine`
#55
jbloom
closed
4 years ago
0
fix bug in `filter_by_subs_observed` (v 0.8.2)
#54
jbloom
closed
4 years ago
0
Added `filter_by_subs_observed` function
#53
jbloom
closed
4 years ago
0
add `escape_scores` score type `frac_escape` (v 0.8.1)
#52
jbloom
closed
4 years ago
0
fix typo in `BinaryMap` docs
#51
jbloom
closed
4 years ago
0
version 0.8.0: update / fix `CodonVariantTable.escape_score`
#50
jbloom
closed
4 years ago
0
Allow `classifyVariants` to take scores by `aa_substitutions`
#49
ajgreaney
closed
4 years ago
1
Fix `CodonVariantTable.escape_scores` bug that gives null escape scores
#48
jbloom
closed
4 years ago
0
version 0.7.0
#47
jbloom
closed
4 years ago
0
stop pinning `plotnine` to 0.6.0
#46
jbloom
closed
4 years ago
0
fix bug in `CodonVariantTable.classifyVariants` w multiple targets
#45
jbloom
closed
4 years ago
0
`add_frac_counts` & `plotCountsPerVariant` added to `CodonVariantTable`
#44
jbloom
closed
4 years ago
0
`CodonVariantTable.classifyVariants` handles non-primary targets
#43
jbloom
closed
4 years ago
0
`classifyVariants` handles non-primary targets
#42
jbloom
closed
4 years ago
0
add `CodonVariantTable.escape_scores`
#41
jbloom
closed
4 years ago
0
speed up `classifyVariants`
#40
jbloom
closed
4 years ago
0
version 0.6: `CodonVariantTable` handles secondary targets
#39
jbloom
closed
4 years ago
0
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