Rnaseq Python Packages

helical

A framework for state-of-the-art pre-trained bio foundation models on genomics and transcriptomics modalities.

rnalysis

RNAlysis is an analysis software for RNA sequencing data. RNAlysis can help to filter, visualize, explore, analyze, and share your data.

bonesistools

Python package providing bioinformatics tools for upstream and downstream analysis of the BoNesis framework

ore

Associate outliers with rare variation

globalsearch

globalsearch is a collection of Python modules and command tools for the Global Search pipeline.

pm4ngs

Project Manager for NGS data analysis

xpressplot

A toolkit for navigating and analyzing gene expression datasets

htseqcountcluster

A cli for running multiple qsub jobs with HTSeq's htseq-count on a cluster.

eastr

Emending Alignment of Spliced Transcript Reads

celligner

A useful module for alligning cell lines to tumors

xpresstools

A toolkit for navigating and analyzing gene expression datasets

runas

RNA-seq pipeline

novartis-pisces

PISCES is a pipeline for rapid transcript quantitation, genetic fingerprinting, and quality control assessment of RNAseq libraries using Salmon.

tmerge

Build highly accurate transcripts from long-read RNA data

pydeconv

Python implementation of bulk RNAseq deconvolution algorithms