GMS statistics

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GMS specifications

Information


Unique identifier OMICS_19507
Name GMS
Alternative name Genome Modeling System
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Stability Stable
Source code URL https://codeload.github.com/genome/gms/tar.gz/gms-stable-2014.01.26
Maintained Yes

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Maintainers


  • person_outline Obi L. Griffith <>
  • person_outline Malachi Griffith <>

Publication for Genome Modeling System

GMS in publications

 (2)
PMCID: 5880262
PMID: 29440180
DOI: 10.1101/mcs.a002444

[…] version 0.7.10 (params: -t 8::), then merged and deduplicated using picard version 1.113 (https://broadinstitute.github.io/picard/). somatic variants were called from the combined data using our genome modeling system () as follows., snvs were detected using the union of four callers: (1) samtools () version r982 (params: mpileup -buds) intersected with somatic sniper () version 1.0.4 […]

PMCID: 4855253
PMID: 27058228
DOI: 10.1038/bcj.2016.18

[…] sequencing () on the aml and cml samples from each patient using skin dna isolated at the time of aml diagnosis as the 'normal' comparator for each case. sequence analysis was performed using the genome modeling system. mean coverage for filtered variants was over 100 × for all samples with a required minimum coverage of at least 30 ×. for validation, ion ampliseq custom panels (thermo fisher […]


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GMS institution(s)
The Genome Institute, Washington University in St. Louis, St. Louis, MI, USA; Department of Genetics, Washington University School of Medicine, St. Louis, MI, USA; Department of Medicine, Washington University School of Medicine, St. Louis, MI, USA; Siteman Cancer Center, Washington University School of Medicine, St. Louis, MI, USA; Department of Molecular Microbiology, Washington University School of Medicine, St. Louis, MI, USA
GMS funding source(s)
Supported by an NHGRI Large Scale Sequencing and Analysis Center grant (U54 HG003079), NHGRI Genome Sequencing Informatics Tools (GS-IT) Program U01 HG006517 and an Amazon AWS in Education Research Grant Award.

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