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 1-20 of 135 topics
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
RE: present/absent calls based on sailfish/salmon quantification Chakri 9/19/16
lib_format_counts.json Daniel Hyduke 9/19/16
Bimodal TPMs Daniel Hyduke 9/12/16
salmon 0.7.0 crashes in alignment mode Chi Zhang 9/9/16
salmon 0.7.0 crashes in alignment based mode Rob 8/19/16
No transcript names in output Chakri 8/19/16
effective gene length and TPM values in Salmon's output files Tzachi 8/3/16
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