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jamescasbon
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PyVCF
A Variant Call Format reader for Python.
http://pyvcf.readthedocs.org/en/latest/index.html
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Kmp 2to3 fixes poetry
#345
netsettler
closed
1 year ago
1
V3 update
#344
stmhull
closed
1 year ago
0
kmp enhancements to Will's 2to3 PR
#343
netsettler
closed
1 year ago
1
Develop
#342
dustinbleile
closed
1 year ago
0
AttributeError: 'MyReader' object has no attribute 'info' for vcf file
#341
anummunirmughal
opened
1 year ago
0
Fix invalid escape sequences in regex strings
#340
DavidCain
opened
2 years ago
0
import error
#339
gebdu
opened
2 years ago
0
Update README.rst
#338
CholoTook
opened
2 years ago
0
FILTER line is malformed
#337
myourshaw
opened
2 years ago
2
Cannot use import vfc
#336
doctorasgr
opened
2 years ago
1
===> PyVCF3 <<===
#335
dridk
opened
2 years ago
9
error in PyVCF setup command: use_2to3 is invalid
#334
MingchenInSZ
opened
2 years ago
11
Write --output
#333
tahirasma
closed
2 years ago
1
install fails if setuptools >= 58
#332
myourshaw
opened
3 years ago
1
remove use_2to3 for new setuptools
#331
tsnowlan
opened
3 years ago
8
VCF reader.fetch
#330
RNJ1993
opened
3 years ago
0
parsing converts QUAL == zero to period, inconsistent numeric type breaks downstream filtering
#329
katrinakalantar
opened
3 years ago
1
Resource warning while using the library due to file not being closed in parser.py
#328
Rohan-cod
opened
3 years ago
3
vcf_filter.py python3 error with --output
#327
ghost
opened
3 years ago
0
Changes to parser.py and model.py to allow for nonstandard VCF file headers
#326
BioComSoftware
opened
4 years ago
1
Custom section delimited by ";" and not ":"
#325
BioComSoftware
closed
4 years ago
2
Pandas dataframe integration
#324
hkmztrk
opened
4 years ago
0
Getting an OSError when trying vcf.fetch()
#323
DeadlineWasYesterday
opened
4 years ago
0
Single threaded but uses pysam, so not single threaded
#322
schultzm
opened
4 years ago
0
Is the project dead ?
#321
dridk
closed
4 years ago
1
SnpSift use NA for empty values which cause a crash.
#320
dridk
closed
2 years ago
1
Filtering REF column of VCF file
#319
Trincatalyst
closed
4 years ago
0
ValueError: could not convert string to float: 'NA'
#318
dridk
opened
4 years ago
5
VCF Filtration doesn't work with uncompressed, or UTF-8
#317
OgnjenMilicevic
opened
5 years ago
1
Cannot import PyVCF in Python 3.5 after successful installation by pip
#316
nkuyfq
opened
5 years ago
1
Walk_together cannot handle multiple mutation on a same position
#315
Wan-Yifei
opened
5 years ago
0
is this alive?
#314
greyltc
opened
5 years ago
3
Adding a new FILTER in the VCF header
#313
saty89
opened
5 years ago
0
file progression
#312
dridk
opened
5 years ago
0
fetch record using "ID"
#311
aparna06
opened
5 years ago
0
usage example in README is outdated
#310
zmiimz
opened
5 years ago
0
Old use of print function
#309
mbhall88
opened
5 years ago
0
hiConfDeNovo \ loConfDeNovo bug
#308
gordonmi
opened
5 years ago
0
Allow for Invalid Position in VCF Record
#307
kevinjyee
closed
2 years ago
0
Fix affected_start/end with a MNP
#306
nh13
opened
5 years ago
0
Reader compatible with files opened in bytes mode
#305
jkoestinger
opened
5 years ago
0
Define repr(_Record) using existing str method
#304
peterjc
opened
6 years ago
0
Missing HISTORY entry for v0.6.8 and work since
#303
peterjc
opened
6 years ago
0
Missing git tags for releases
#302
peterjc
opened
6 years ago
0
Move sphinx-specific :doc: entry out of README.rst
#301
peterjc
opened
6 years ago
0
Bullets not a literal block; don't indent bullets
#300
peterjc
opened
6 years ago
0
Issue #298: boundary checks when columns in FORMAT != samples
#299
joaoe
opened
6 years ago
0
Mismatch between FORMAT and sample columns cause IndexError
#298
joaoe
opened
6 years ago
2
GT field gets set to None when no call is made
#297
Marcormio
opened
6 years ago
0
ValueError: could not convert string to float
#296
ecaestecker
closed
6 years ago
2
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