GLiMMPS statistics

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GLiMMPS specifications

Information


Unique identifier OMICS_01947
Name GLiMMPS
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Perl, Python, R
Computer skills Advanced
Stability No
Requirements
lme4, MASS
Maintained Yes

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Maintainer


  • person_outline Yi Xing <>

Publication for GLiMMPS

GLiMMPS in publications

 (5)
PMCID: 5532815
PMID: 28754146
DOI: 10.1186/s13059-017-1270-7

[…] between rna editing levels and genomic snps was with an edqtl analysis. specifically, we tested associations between snps and rna editing levels (φ) using a generalized linear mixed model glimmps [], which accounts for coverage variation and noise in the rna-seq data. rather than treating the rna-seq estimate of φ as a point estimate, the glimmps model uses the read counts […]

PMCID: 4648566
PMID: 26609224
DOI: 10.4137/BBI.S28991

[…] miso for identification and regulation of isoforms from clip-seq data and splicemap, splitseek, splicer, and splicingcompass for detection of splice junctions and exon usage from pair-end rna-seq. glimmps provides a useful tool for elucidating the genetic variation of alternative splicing in humans and model organisms. mats is developed from a statistical method and used for detecting […]

PMCID: 4333812
PMID: 25733796
DOI: 10.4137/CIN.S24832

[…] algorithm, a statistical method that utilizes paired-end reads and accounts for non-uniform sequencing coverage., using both simulated and real rna-seq datasets, we compared these three methods with glimmps, a recently developed method for sqtl analysis. our results indicate that the most reliable and powerful method was the random effects meta-regression approach, which identified sqtls at low […]

PMCID: 4218654
PMID: 25452687
DOI: 10.4137/CIN.S13971

[…] algorithm, a statistical method that utilizes paired-end reads and accounts for non-uniform sequencing coverage., using both simulated and real rna-seq datasets, we compared these three methods with glimmps, a recently developed method for sqtl analysis. our results indicate that the most reliable and powerful method was the random effects meta-regression approach, which identified sqtls at low […]

PMCID: 4357815
PMID: 23835348
DOI: 10.1016/j.gpb.2013.07.001

[…] regulation can confer differential alternative splicing between human individuals and, as a consequence, impact expression level or function of proteins. prof. yi xing and his team have developed glimmps, a robust tool for the detection of genetic variations in alternative splicing from rna-seq data. as population-scale rna-seq studies become increasingly affordable and popular, glimmps […]


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GLiMMPS institution(s)
Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, CA, USA; Department of Internal Medicine, University of Iowa, Iowa City, IA, USA; Department of Statistics, University of California, Los Angeles, CA, USA
GLiMMPS funding source(s)
NIH grant R01GM088342, Burroughs Wellcome Fund grant 1008841.01, a March of Dimes Foundation Basil O’Connor Starter Scholar Research Award #5-FY10-60, and an NIH T32 postdoctoral fellow training grant T32HL007638

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