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daler
/
gffutils
GFF and GTF file manipulation and interconversion
http://daler.github.io/gffutils
MIT License
280
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76
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Trouble with db.region(..., completely_within=True)
#234
Lservi
opened
2 weeks ago
0
test_roundtrip fails: test_roundtrip
#233
yurivict
opened
3 weeks ago
0
Update an entry and retain children
#232
p-polacek
closed
2 months ago
3
V0.13rc
#231
daler
closed
2 months ago
0
Value of Target attribute gains quotes when it shouldn't in round trip manipulation
#230
photocyte
opened
3 months ago
4
Add pytest 8.x compat
#229
mr-c
closed
4 months ago
1
move strand specification to FeatureLocation in `to_seqfeature`
#228
stevendbrown
closed
2 months ago
1
FeatureDB.update on disk db very slow
#227
YeHW
closed
2 months ago
2
How to get closest features?
#226
YeHW
closed
2 months ago
1
Fix repository URL in README.rst
#225
AMDmi3
closed
5 months ago
1
gffutils-cli incompatability with argh >= 0.30.0
#224
photocyte
opened
8 months ago
0
Suggestion: Drop support for python < 3.7 and add support for newer python verison
#223
aqeelat
closed
2 months ago
0
V0.12rc
#222
Juke34
closed
1 year ago
1
v0.12 rc
#221
daler
closed
1 year ago
3
add a function to create splice sites similar to create_introns
#220
Juke34
closed
1 year ago
4
Fix bug multiple values for ID attribute are no longer permitted since v0.11
#219
Juke34
closed
1 year ago
3
How to get all the gene ids of the read gff file
#218
z626093820
closed
1 year ago
1
how to save the modified gff to the disk
#217
z626093820
closed
1 year ago
2
Sqlite3.OptimizedUnicode deprecation warning
#216
heidi-holappa
closed
1 year ago
1
replace base split by regex split to fix ; inside quotes
#215
DevangThakkar
opened
1 year ago
2
merge_strategy='create_unique' not always creating unique id's
#214
novigit
opened
1 year ago
2
create_db() does not parse directives from GFF files starting in v0.11.0
#213
dtdoering
opened
1 year ago
3
Field separators in quoted attributes cause error
#212
zwpwjwtz
opened
1 year ago
3
Please remove 'nose' dependencies from tests: nose is not maintained and doesn't work any more on many systems
#211
yurivict
closed
1 year ago
1
gtf_extract command not found with conda installation
#210
almart7
closed
1 year ago
4
add test for #207
#209
daler
closed
1 year ago
0
fix #198
#208
daler
closed
1 year ago
0
Inconsistent behaviour of trailing semicolon
#207
dariober
closed
1 year ago
1
Handling of multi-line features with same ID
#206
andrewkennard
closed
1 year ago
3
Apologies - delete me!
#205
dariober
closed
1 year ago
0
db.parents(id) stops at level 2?
#204
dariober
opened
1 year ago
0
Map transcript coordinates to genome coordinates
#203
dariober
opened
1 year ago
3
"ValueError: The ID field ID has more than one value" when updating database.
#202
msarrias
closed
1 year ago
2
Use pytest instead of the Py3.11 incompatible nose (#200)
#201
daler
closed
1 year ago
2
Use pytest instead of the Py3.11 incompatible nose
#200
mr-c
closed
1 year ago
3
fix #197
#199
daler
closed
1 year ago
0
How to create database for GRCh38_latest_genomic.gtf.gz?
#198
chenzemin
closed
1 year ago
4
Updating db with intergenic space features
#197
novigit
closed
1 year ago
9
SyntaxError when importing gffutils using python 2.7.15
#196
haiyueliu
closed
1 year ago
2
bedtools object by pybedtools_integration.to_bedtool: pybedtools.merge automatically substracts start position by one
#195
ThuyTien1
closed
1 year ago
1
Same IDs for gene_id and transcript_id
#194
andrewprzh
closed
2 years ago
3
address #181
#193
daler
closed
2 years ago
0
address #174 (new numeric_sort arg)
#192
daler
closed
2 years ago
0
address #167
#191
daler
closed
2 years ago
0
add new FeatureDb.seqids; addresses #166
#190
daler
closed
2 years ago
0
address #164
#189
daler
closed
2 years ago
0
address #159
#188
daler
closed
2 years ago
0
address #157
#187
daler
closed
2 years ago
0
Fix docs in 3.8
#186
daler
closed
2 years ago
0
address #128
#185
daler
closed
2 years ago
0
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