gsnap
spliced and SNP-tolerant alignment for mRNA and short reads
Install
- All systems
-
curl cmd.cat/gsnap.sh
- Ubuntu
-
apt-get install gmap - Kali Linux
-
apt-get install gmap - Fedora
-
dnf install snap-gtk - Windows (WSL2)
-
sudo apt-get updatesudo apt-get install gmap - Dockerfile
- dockerfile.run/gsnap
gmap
spliced and SNP-tolerant alignment for mRNA and short reads
This package contains the programs GMAP and GSNAP as well as utilities to manage genome databases in GMAP/GSNAP format. GMAP (Genomic Mapping and Alignment Program) is a tool for aligning EST, mRNA and cDNA sequences. GSNAP (Genomic Short-read Nucleotide Alignment Program) is a tool for aligning single-end and paired-end transcriptome reads. Both tools can use a database of * known splice sites and identify novel splice sites. * known single-nucleotide polymorphisms (SNPs). GSNAP can align bisulfite-treated DNA.