FastaToDeBruijn

RNA-Seq De novo Assembly

Install

All systems
curl cmd.cat/FastaToDeBruijn.sh
Debian Debian
apt-get install trinityrnaseq
Ubuntu
apt-get install trinityrnaseq
image/svg+xml Kali Linux
apt-get install trinityrnaseq
Windows (WSL2)
sudo apt-get update sudo apt-get install trinityrnaseq
Dockerfile
dockerfile.run/FastaToDeBruijn

trinityrnaseq

RNA-Seq De novo Assembly

Trinity represents a novel method for the efficient and robust de novo reconstruction of transcriptomes from RNA-seq data. Trinity combines three independent software modules: Inchworm, Chrysalis, and Butterfly, applied sequentially to process large volumes of RNA-seq reads. Trinity partitions the sequence data into many individual de Bruijn graphs, each representing the transcriptional complexity at a given gene or locus, and then processes each graph independently to extract full-length splicing isoforms and to tease apart transcripts derived from paralogous genes.