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jbloomlab
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dms_variants
Analyze deep mutational scanning of barcoded variants.
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`plotCumultMutCoverage` y-axis extends from 0 to 1
#38
jbloom
closed
4 years ago
0
`CodonVariantTable` plots no facet title if 1 lib
#37
jbloom
closed
4 years ago
0
print bottleneck estimates in `estimateBottleneck` docs
#36
jbloom
closed
4 years ago
0
version 0.5.0 (bottleneck likelihood, multiple latent phenotypes)
#35
jbloom
closed
4 years ago
0
estimate pre- to post-selection bottlenecks
#34
jbloom
closed
4 years ago
0
bottleneck likelihood for global epistasis models
#33
jbloom
closed
4 years ago
0
multiple latent phenotypes in global epistasis models
#32
jbloom
closed
4 years ago
0
added `expand` option to `BinaryMap`
#31
jbloom
closed
4 years ago
0
Fix bug in `AbstractEpistasis.preferences`
#30
jbloom
closed
4 years ago
0
get mutational effects and preferences with more options
#29
jbloom
closed
4 years ago
0
Fix errors using `pandas.query` for ``nan`` values
#28
jbloom
closed
4 years ago
0
change recommendations for base in scores / phenotypes to prefs
#27
jbloom
closed
4 years ago
0
convert scores / phenotypes to preferences
#26
jbloom
closed
4 years ago
0
better caching for better pickling of epistasis models
#25
jbloom
closed
4 years ago
0
predict unseen variants example
#24
jbloom
closed
4 years ago
0
global epistasis likelihood more robust to experimental noise
#23
jbloom
closed
4 years ago
0
implement Cauchy likelihood, more robust to noise
#22
jbloom
closed
4 years ago
0
minor fixes to `codonvariant_sim_data.ipynb` example
#21
jbloom
closed
4 years ago
0
added global epistasis models and incremented to version 0.3.0
#20
jbloom
closed
4 years ago
0
update simulator to use enrichments
#19
jbloom
closed
4 years ago
0
speed up by fixing x in I-splines
#18
jbloom
closed
4 years ago
0
merge exact grad into epistasis
#17
jbloom
closed
4 years ago
0
remove deprecated `Bio.Alphabet` to fix warning
#16
jbloom
closed
5 years ago
0
Added `utils.tidy_to_corr`
#15
jbloom
closed
5 years ago
0
version 0.2.0 complete: docs updated, example notebooks
#14
jbloom
closed
5 years ago
0
add `syn_as_wt` to `CodonVariantTable.classifyVariants`
#13
jbloom
closed
5 years ago
0
fix bug w `sample_rename` in `CodonVariantTable.plotMutFreqs`
#12
jbloom
closed
5 years ago
0
`sample_rename` for `CodonVariantTable` plots
#11
jbloom
closed
5 years ago
0
better plotting
#10
jbloom
closed
5 years ago
0
added `CodonVariantTable.add_sample_counts_df` method
#9
jbloom
closed
5 years ago
0
`libraries` arg to `CodonVariantTable.func_scores`
#8
jbloom
closed
5 years ago
0
fix bug faceting samples in `CodonVariantTable`.
#7
jbloom
closed
5 years ago
0
Illumina barcode parser
#6
jbloom
closed
5 years ago
0
updates to .gitignore and test reqs
#5
jbloom
closed
5 years ago
0
specify subs col in init `CodonVariantTable`
#4
jbloom
closed
5 years ago
0
Make compatible with `pandas` 0.25
#3
jbloom
closed
5 years ago
0
add `CodonVariant.numCodonMutsByType` method
#2
jbloom
closed
5 years ago
0
Fixes to docs /formatting in Jupyter notebooks
#1
jbloom
closed
5 years ago
0
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