Updates
- 5/25/2012
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Release of MATS 2.1.0
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MATS now works with both read sequence files (fastq) and mapped reads files (bam). Using bam files
adds flexibility in mapping because MATS will skip the read mapping step.
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A bug related to an empty AS event file is fixed.
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- 5/15/2012
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Release of MATS 2.0.0, a major update with important features added to MATS:
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Simplified running procedure: MATS now only requires the raw RNA-Seq data, a genome sequence file, and a gene/transcript annotation file in GTF format as the input.
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Ability to analyze different types of alternative splicing events: MATS now automatically detects and analyzes alternative splicing events corresponding to all major types of alternative splicing patterns.
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Improved statistical power: MATS now works with both exon-exon junction reads and exon body reads which leads to improved statistical power.
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- 3/5/2012
- Release of MATS 1.2.0, added a new method to calculate P-values by likelihood-ratio test, which is ~100x faster than the Bayesian method.
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- 2/16/2012
- Release of MATS 1.1.0, adds Ensembl version of mouse annotation.
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- 12/15/2011
- Release of MATS 1.0.0, the initial version of MATS was opened.
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Citation
Shen S., Park JW., Huang J., Dittmar KA., Lu ZX., Zhou Q., Carstens RP., Xing Y.
MATS: A Bayesian Framework for Flexible Detection of Differential Alternative Splicing from RNA-Seq Data.
Nucleic Acids Research, 2012;40(8):e61
doi: 10.1093/nar/gkr1291
Contact
Correspondences regarding the MATS algorithm should be directed to Prof. Yi Xing (yxing at ucla.edu) and Shihao Shen (shihao-shen at uiowa.edu).
Correspondences regarding running of the MATS pipeline should be directed to Juw Won Park (jwpark2012 at ucla.edu).
