Repository revision
repository tip
Select a revision to inspect and download versions of Galaxy utilities from this repository.

Repository sailfish
Name: sailfish
Owner: bgruening
Synopsis: Sailfish is a tool for transcript quantification from RNA-seq data
Sailfish is a tool for transcript quantification from RNA-seq data. It requires a set of target transcripts
(either from a reference or de-novo assembly) to quantify. All you need to run sailfish is a fasta file containing your reference
transcripts and a (set of) fasta/fastq file(s) containing your reads. Sailfish runs in two phases; indexing and quantification.
The indexing step is independent of the reads, and only needs to be run once for a particular set of reference transcripts and
choice of k (the k-mer size). The quantification step, obviously, is specific to the set of RNA-seq reads and is thus run more frequently
Additional covariates may optionally be provided to further inform the peak-calling process. 

https://github.com/kingsfordgroup/sailfish
Type: unrestricted
Revision: 7:a8f343909c17
This revision can be installed: True
Times cloned / installed: 1850

Contents of this repository

Name Description Version Minimum Galaxy Version
transcript quantification from RNA-seq data 0.10.1.1 any

Categories
Sequence Analysis - Tools for performing Protein and DNA/RNA analysis
RNA - Utilities for RNA