Arriba is a command-line tool to detect gene fusions from RNA-Seq data based on the STAR aligner. In addition to fusions, it can detect exon duplicati

EPIC is a R package and Shiny app to estimate the proportions of different cell types from bulk gene expression data.

Stand-alone Java application as well as a Java library designed to be used in larger software frameworks for exome analysis.

Trinity is a transcriptome assembler which relies on three different tools, inchworm an assembler, chrysalis which pools contigs and butterfly which a

An R/Bioconductor package that imports transcript-level abundance, estimated counts and transcript lengths, and summarizes into matrices for use with