A tool to estimate differential expression and confidence intervals in RNA-seq data. The IsoEM2 package integrates both IsoEM2 and IsoDE2. The IsoEM2 algorithm uses bootstrapping to evaluate expression levels and confidence intervals. It reports fragments per kilobase million and transcript per million (FPKM, TPM) for genes and isoforms. IsoDE2 uses the data generated by IsoEM2 to analyze differential expression.
RNA-seq; Gene expression; Sequence analysis
Mandric I, Temate-Tiagueu Y, Shcheglova T, Al Seesi S, Zelikovsky A, Mandoiu II "Fast bootstrapping-based estimation of confidence intervals of expression levels and differential expression from RNA-Seq data." Bioinformatics. 2017 Oct 15;33(20):3302-3304. https://doi.org/10.1093/bioinformatics/btx365
PMID: 28605502
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