Polyester protocols

Polyester specifications

Information


Unique identifier OMICS_04272
Name Polyester
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Polyester takes annotated transcript nucleotide sequences as input. These can be provided as cDNA sequences in FASTA format, labeled by transcript. Alternatively, users can simulate from a GTF file denoting exon, transcript, and gene structure paired with full-chromosome DNA sequences.
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License Artistic License version 2.0
Computer skills Advanced
Version 1.4.0
Stability Stable
Maintained Yes

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Documentation


Maintainer


  • person_outline Alyssa Frazee <>

Publication for Polyester

Polyester IN pipeline

2017
PMCID: 5600148
PMID: 28263959
DOI: 10.1038/nmeth.4197

[…] the number of threads. on the rsem-sim data, all methods were run without bias correction. on all other datasests, methods were run with bias correction unless otherwise noted. additionally, on the polyester simulated data, salmon was run with the option --nobiaslengththreshold, which allows bias correction, even for very short transcripts, since we were most interested in assessing […]

Polyester institution(s)
Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, MN, USA

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