MISO

Application data
Biological application domain(s)	RNA-Seq quantification, RNA-Seq, Alternative splicing
Technology	Any
Maintained?	Yes
Input format(s)	SAM/BAM

Summary: An alternative to Cufflinks, MISO (Mixture-of-Isoforms) is a probabilistic framework that quantitates the expression level of alternatively spliced genes.

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Description

MISO (Mixture-of-Isoforms) is a probabilistic framework that quantitates the expression level of alternatively spliced genes from RNA-Seq data, and identifies differentially regulated isoforms or exons across samples. By modeling the generative process by which reads are produced from isoforms in RNA-Seq, the MISO model uses Bayesian inference to compute the probability that a read originated from a particular isoform.

Notes:

1) MISO requires all reads of equal length. i.e. Don't supply with quality trimmed reads.