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rMATS | A Bayesian framework for flexible detection of differential alternative splicing from RNA-Seq data

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A statistical model and computer program designed for detection of differential alternative splicing from replicate RNA-Seq data. rMATS uses a hierarchical model to simultaneously account for sampling uncertainty in individual replicates and variability among replicates. In addition to the analysis of unpaired replicates, rMATS also includes a model specifically designed for paired replicates between sample groups. The hypothesis-testing framework of rMATS is flexible and can assess the statistical significance over any user-defined magnitude of splicing change. The old version of rMATS was called MATS.

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rMATS classification

rMATS specifications

Unique identifier:
OMICS_01336
Alternative name:
MATS
Interface:
Command line interface
Input format:
(FASTQ, BAM) + GTF
Output format:
TXT
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes
Name:
replicate Multivariate Analysis of Transcript Splicing
Software type:
Application/Script
Restrictions to use:
None
Output data:
Alternative Splicing events sorted by P-values in ascending order
Operating system:
Unix/Linux, Mac OS
Version:
3.2.5
Requirements:
STAR, Samtools, Numpy, Scipy, Pysam

rMATS distribution

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rMATS support

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Publications

Institution(s)

Departments of Microbiology, Immunology, and Molecular Genetics and Departments of Molecular Physiology and Biophysics and Pathology, University of Iowa, Iowa City, IA, USA; Statistics, University of California, Los Angeles, CA, USA; Departments of Microbiology, Immunology, & Molecular Genetics, USA

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