RSEM (RNA-Seq by Expectation-Maximization) is a tool for the quantification of RNA-seq data. The RSEM algorithm uses the expectation-maximization technique, it can operate with and without a reference, and reports transcripts per million mapped reads (TPM). RSEM scales linearly with the amount of alignment quantity and uses The Bowtie tool for the read alignments.
RNA-seq; Gene expression; Transcriptomics
Li B, Dewey CN "RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome." BMC Bioinformatics. 2011 Aug 4;12:323. https://doi.org/10.1186/1471-2105-12-323
PMID: 21816040
PMCID: PMC3163565
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