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mdshw5
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pyfaidx
Efficient pythonic random access to fasta subsequences
https://pypi.python.org/pypi/pyfaidx
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Add packaging library for #220
#223
mdshw5
closed
1 month ago
0
Update documentation for get_seq which uses 1-based closed intervals
#222
eroller
closed
1 month ago
2
--transform nucleotide throws KeyError
#221
kubu4
closed
1 month ago
2
Missing library packaging
#220
nerilbl
closed
1 month ago
1
Update develop
#218
mdshw5
closed
5 months ago
0
getting UnicodeDecodeError when running faidx with a bed file input
#217
yonniejon
closed
7 months ago
8
Update __init__.py
#216
rraadd88
closed
8 months ago
5
remove old Python 2 hybridation
#215
a-detiste
closed
8 months ago
2
Insert indels using mutable option
#214
anderdnavarro
closed
5 months ago
2
Replace usage of pkg_resources API
#213
mdshw5
closed
1 year ago
0
DeprecationWarning: pkg_resources
#212
antonylebechec
closed
1 year ago
2
Incorrect results when used in parallel
#211
rahul2512
closed
5 months ago
12
Update codecov action
#210
mdshw5
closed
1 year ago
0
FastaVariant for checking the reference genome for the VCF file
#209
shelpuk
closed
1 year ago
1
27 tests fail on `=pyfaidx-0.7.2.1`
#208
TheChymera
closed
1 year ago
1
missing setuptools dependency in v0.7.2
#207
mdshw5
closed
1 year ago
0
missing setuptools dependency in 0.7.2
#206
ryanking
closed
1 year ago
2
'Sequence.gc' Method for IUPAC bases
#205
Bardia-Masudy
closed
1 year ago
2
Move the --invert-match example to the top
#204
mdshw5
closed
1 year ago
0
Allow supplying no .bed file and creating just the index
#203
wbazant
closed
1 year ago
2
fix ResourceWarning: unclosed file
#202
siebrenf
closed
1 year ago
1
Bump pysam from 0.19.1 to 0.20.0
#201
dependabot[bot]
closed
1 year ago
1
Switch to pyproject.toml
#200
marcelm
closed
1 year ago
2
fix bgzf test failure with biopython 1.80
#199
emollier
closed
1 year ago
4
Add use case for indexing FASTA with suppressed output
#198
mdshw5
closed
1 year ago
0
Update python versions in CI
#197
mdshw5
closed
1 year ago
1
Merge changes from #184 to release
#196
mdshw5
closed
2 years ago
0
Bump minimum python to 3.7
#195
mdshw5
closed
2 years ago
0
fix: remove seemingly superfluous import of pysam
#194
johanneskoester
closed
2 years ago
2
Implement fsspec handling for indexname
#193
ap--
closed
2 years ago
1
Add indexname kwarg to Faidx and Fasta
#192
mdshw5
closed
2 years ago
1
Minor change in pytest xfail usage in tests
#191
ap--
closed
2 years ago
1
Add fsspec support
#190
ap--
closed
2 years ago
8
BED parsing not fully compliant with spec
#189
mdshw5
opened
2 years ago
0
Add acidbio/bed tests
#188
mdshw5
closed
2 years ago
0
Version in APT doesn't have correct dependenceis
#187
CholoTook
closed
2 years ago
2
Migration to pyproject.toml?
#186
palao
closed
1 year ago
7
Remove deprecated argument to random.shuffle
#185
mdshw5
closed
2 years ago
0
pathlib.Path can be passed to Fasta and Faidx
#184
palao
closed
2 years ago
5
Using a pathlib.Path object as filename
#183
palao
closed
2 years ago
5
python3.8 pip install with --user, on mac, doesn't install faidx script
#182
rsharris
closed
2 years ago
4
Transition from Travis-CI to GH actions
#181
mdshw5
closed
2 years ago
1
Variant fasta non ref chr
#180
lldelisle
closed
2 years ago
5
fetch a chromosome on a FastaVariant which is not part of the vcf raises an error
#179
lldelisle
closed
2 years ago
2
fix RC
#178
y9c
closed
3 years ago
2
fool proof faidx .bed file documentation
#177
darked89
closed
3 years ago
1
Feature request: get sequence length
#176
marco-mariotti
closed
3 years ago
2
Make FASTA index creation atomic
#175
mdshw5
closed
3 years ago
0
Incomplete index
#174
marco-mariotti
closed
3 years ago
3
Header longer than actual fasta header
#173
Axze-rgb
closed
3 years ago
2
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