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GitHub / ablab / IsoQuant

Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)

JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ablab%2FIsoQuant

Stars: 120
Forks: 11
Open Issues: 11

License: other
Language: Python
Repo Size: 18.7 MB
Dependencies: 19

Created: about 4 years ago
Updated: 2 days ago
Last pushed: 2 days ago
Last synced: 1 day ago

Topics: bioinformatics, nanopore, ngs, pacbio, rna-seq, transcriptomics

Files

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Readme

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Dependencies

requirements.txt pypi

biopython ==1.76
gffutils ==0.10.1
pandas ==1.0.1
pybedtools ==0.8.1
pysam >=0.15

requirements_tests.txt pypi

argcomplete ==1.11.1 test
argh ==0.26.2 test
biopython ==1.76 test
gffutils ==0.10.1 test
numpy ==1.22.0 test
pandas ==1.0.1 test
pybedtools ==0.8.1 test
pysam >=0.15 test
pytest ==5.4.1 test
pytest-cov ==2.8.1 test
simplejson ==3.17.0 test
six ==1.14.0 test

.github/workflows/python-app.yml actions

actions/checkout v3 composite
actions/setup-python v3 composite