Sailfish Users Group

Welcome to the Sailfish users group.  Sailfish is a software package for rapid k-mer based inference of transcript abundances from RNA-seq data.  See http://www.cs.cmu.edu/~ckingsf/software/sailfish/ (or short URL ongen.us/SFish) for downloads and citation information. This Sailfish users group provides a forum beyond bug reports (which can be filed directly on the GitHub issues page for Sailfish).

Showing 1-21 of 143 topics
Sailfish / Salmon User Feedback Survey Carl_Kingsford 3/27/17
Identical transcripts in fasta file dmr210 2:44 AM
Install issues Eugene Bolotin 4/22/17
the fatal error: failed to allocate 16 groups YIXIN LI 3/15/17
Does Salmon run time scale linearly with transcriptome size? James Lloyd 2/21/17
ISSUE: number of genes detected in a single cell Gary Ho 2/21/17
Variable length reads and effective length Shawn Driscoll 1/28/17
problem with stranded single-end library with alignment-based method Hien To 1/26/17
Mapping Rate: 0% Carlos Guzman 1/10/17
Problems with Salmon Installation shaun webb 1/10/17
Raw (Non-normalized) counts Pankaj Agarwal 1/3/17
ENSEMBL Transcript fasta file Pankaj Agarwal 12/20/16
Handling of insertions/deletions/point mutations Chakri 12/2/16
Across sample normalization using ERCC spike-ins on single-cell RNA-seq datasets after Salmon quantification Gary Ho 12/1/16
Message during salmon quant: couldn't dequeue read chunk Gregory P 11/2/16
How many reads needed per prokaryote sample to run a sailfish analysis? Lina Faller 11/1/16
Recommended reference sequences Thomas Sandmann 10/28/16
Reducing k-mer length in Salmon for reads < 75 nt Thomas Sandmann 10/19/16
Ribo-depletion Thomas Sandmann 10/17/16
Reordering / shuffling paired-end FASTQ files Thomas Sandmann 10/17/16
STAR + Salmon Martin Selmansberger 10/16/16
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