Rnaseq Python Packages

helical

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

rnalysis

Analyze your RNA sequencing data without writing a single line of code

globalsearch

Code repository for the Coral Global Search project.

eastr

Emending Alignment of Spliced Transcript Reads

pm4ngs

Project Manager for NGS data analysis

metasheet-guard

Experimental-design-aware quality control for sequencing analysis sample sheets.

ore

Associate outliers with rare variation

celligner

tumor - cancer cell line alignment. Use it on the depmap portal or install it with pip.

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.

novartis-pisces

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

xpresstools

A toolkit for navigating and analyzing gene expression datasets

pydeconv

Python implementation of deconvolution algorithms

runas

RNA-seq pipeline

tmerge

Merge transcriptome read-to-genome alignments into non-redundant transcript models.