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SALMON2

  • Description

    salmon is a wicked-fast program for highly-accurate, transcript-level quantification from RNA-seq data. It pairs a fast mapping stage — selective alignment, or alignment-free sketch mode (--sketch) — with a massively-parallel statistical model (EM/VBEM over equivalence classes) to estimate transcript abundances. You can give salmon raw sequencing reads, or regular alignments to the transcriptome (an unsorted BAM), and it uses the same inference engine either way.

  • Usage

    To list all executables provided by SALMON2, run: $ biogrids-list salmon2 Copy to clipboard

  • Usage Notes

    Salmon 2 is a newer version of Salmon and is curated in BioGrids as a separate title. It is the default title for the 'salmon' program.

    If you would like to use 'salmon' from the Salmon title (versions less than 2) append the title selection to your command:

    salmon --sbapp:salmon

  • Installation

    Use the following command to install this title with the CLI client: $ biogrids-cli install salmon2 Copy to clipboard Available operating systems: Linux 64, OS X INTEL
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