ReviSTER specifications

Information


Unique identifier OMICS_05468
Name ReviSTER
Alternative name Revise Simple Tandem repeat Error Reads
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data ReviSTER takes FASTQ-formatted files, a reference sequence file and a list file containing STR locations as inputs.
Input format FASTQ
Output format SAM
Operating system Unix/Linux
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Harold Garner

Publication for Revise Simple Tandem repeat Error Reads

ReviSTER citations

 (2)
library_books

A Census of Tandemly Repeated Polymorphic Loci in Genic Regions Through the Comparative Integration of Human Genome Assemblies

2018
Front Genet
PMCID: 5941971
PMID: 29770143
DOI: 10.3389/fgene.2018.00155

[…] ism of TR loci in raw reads from sequencing assays are among the most useful supporting tools/resources. Examples of such data mining tools are: RepeatSeq (Highnam et al., ) lobSTR (Gymrek et al., ), ReviSTER (Tae et al., ), VNTRseek (Gelfand et al., ), myFLq (Van Neste et al., ). pSTR Finder (Lee et al., ), STR-FM (Fungtammasan et al., ), ExpansionHunter (Dolzhenko et al., ), HipSTR (Willems et a […]

library_books

Exome Wide Somatic Microsatellite Variation Is Altered in Cells with DNA Repair Deficiencies

2014
PLoS One
PMCID: 4234249
PMID: 25402475
DOI: 10.1371/journal.pone.0110263

[…] below 85% sequence purity. Duplicated loci were identified based on sequence purity and sequence length and were removed.MSTs were analyzed using a custom MST minor-allele caller based on GenoTan and ReviSTER software , , which were developed by this group to improve MST haplotype predictions (https://github.com/zalmanv/MST_minor_allele_caller). The minor-allele caller extracts marked MSTs from ba […]

ReviSTER institution(s)
Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA, USA

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