Splicing Python Packages

alphagenome-pytorch

Implementation of AlphaGenome, Deepmind's updated genomic attention model

pygtftk

The Python GTF toolkit (pygtftk) package: easy handling of GTF files

mmsplice

Predict splicing variant effect from VCF

splam

✂️ Deep learning-based splice site predictor that improves spliced alignments

spliceai-pytorch

Implementation of SpliceAI, Illumina's deep neural network to predict variant effects on splicing, in PyTorch.

splice-q

SPLICE-q -- A Python tool for genome-wide SPLIcing Efficiency quantification from RNA-seq data.

regulas

Bioinformatics Tool for the Integrative Analysis of Alternative Splicing Regulome using RNA-Seq data