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openvax
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pyensembl
Python interface to access reference genome features (such as genes, transcripts, and exons) from Ensembl
Apache License 2.0
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Adding Python Interface files
#307
akmazian
opened
1 month ago
0
Update species.py
#306
pamonlan
opened
2 months ago
1
Add support for downloading plant species with pyEnsembl
#305
pamonlan
closed
3 months ago
1
[New feature] Switching from argparse to click
#304
akmazian
closed
1 month ago
1
[Housekeeping] Explicitly typing all files!
#303
akmazian
opened
4 months ago
2
Update README.md
#302
rraadd88
closed
5 months ago
1
Remove nose from tests
#301
iskandr
closed
5 months ago
0
Remove nose from tests
#300
iskandr
closed
5 months ago
0
A couple of errors encountered with version 2.3.0 (but not with 2.2.9) in `collect_all_installed_ensembl_releases` and `Genome.index` functions
#299
rraadd88
closed
5 months ago
3
[new feature] Support more ensembl genome, such as plants and fungi
#298
y9c
opened
5 months ago
3
transcript_support_level attr would cause error when containing space.
#297
y9c
opened
6 months ago
1
Similar to the list subcommand, a subcommand to list all available release to download is necessary.
#296
y9c
opened
6 months ago
0
Release version 2.3.0
#295
y9c
closed
4 months ago
7
More build in species support (zebrafish, nematode )
#294
y9c
closed
6 months ago
3
Fix dependency chain broken by newer Polars versions
#293
iskandr
closed
5 months ago
0
A few updates
#292
rraadd88
closed
6 months ago
1
Polars < 0.17.0 required
#291
dweemx
closed
9 months ago
1
reformatted code with Black, increased max ensembl release to 110
#290
iskandr
closed
10 months ago
0
chore: bump MAX_ENSEMBL_RELEASE to 110
#289
cameronraysmith
closed
10 months ago
2
Update tags
#288
linqigang888
opened
10 months ago
7
Bump MAX_ENSEMBL_RELEASE to 110?
#287
jared-maguire
closed
4 months ago
1
protein_ids_at_locus() gives incorrect results
#286
aeschriefer
opened
1 year ago
1
bash: pyensembl: command not found
#285
JunxiFeng
opened
1 year ago
1
sqlite bug
#284
hermanzhaozzzz
closed
10 months ago
4
is it possible to find the nearest feature when there is none at the locus
#283
Cloufield
opened
1 year ago
0
Add fruit fly to species
#282
iskandr
closed
1 year ago
1
Update species.py
#281
rraadd88
closed
1 year ago
2
`distance_to_locus` is inf for loci on opposite strands, feature or a bug?
#280
rraadd88
opened
1 year ago
2
Rust kernel panic on download
#279
jordan-schneider
closed
1 year ago
11
Add pandas requirement
#278
deto
closed
1 year ago
1
Add pandas>=1.3.5 as requirement
#277
deto
closed
1 year ago
2
Downloading breaks due to reliance on deprecated numpy feature
#276
vluzko
closed
1 year ago
1
Include requirements.txt in setup.py
#275
galindus
closed
1 year ago
2
Can't install v2.2.2 using pip -> requirements.txt missing
#274
Cloufield
closed
1 year ago
2
Remove pandas dependency
#273
iskandr
closed
1 year ago
1
Try using Polars to read GTF files
#272
iskandr
closed
1 year ago
0
Update ensembl link to download file
#271
pamonlan
closed
1 year ago
2
gene class should have a method to get its sequence
#270
antonkulaga
opened
1 year ago
4
Cannot update Ensembl release
#269
DDudka9
opened
1 year ago
6
only split name of ENSEMBL naming
#268
y9c
closed
1 year ago
2
Cannot Access the coding sequence in specific transcript
#267
HealHer
opened
1 year ago
0
Update ensembl_release_versions.py
#266
y9c
closed
1 year ago
2
[How to use with custom data] NCBI human gene model
#265
damianosmel
opened
2 years ago
1
pip install in conda does not allow for download
#264
da-i
opened
2 years ago
1
Add additional species
#263
gregmcinnes
closed
2 years ago
2
fix assembly name in new release for brown_rat
#262
galindus
closed
2 years ago
2
bump ensembl release version
#261
jkasak
closed
2 years ago
2
A method for getting length of the overlap between two loci
#260
integratebio
opened
2 years ago
0
[Software package citation]
#259
damianosmel
opened
2 years ago
0
Genbank file with feature output for gene?
#258
harijay
opened
2 years ago
0
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