RSEM (RNA-Seq by Expectation-Maximization) — accurate gene and isoform quantification from RNA-seq data using EM algorithm with probabilistic multi-mapped read assignment. Supports STAR, Bowtie2, and
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Install the MCP server or CLI to instantly fetch RSEM documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/rsem
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2 shared topics • 1 shared operation
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IsoformSwitchAnalyzeR — R/Bioconductor package for detecting, annotating, and visualizing isoform switches with functional consequences from RNA-seq data. Integrates with Salmon, kallisto, StringTie,
2 shared topics • 1 shared operation
salmon — Fast, bias-aware transcript quantification from RNA-seq data using selective alignment to the transcriptome. Supports bulk RNA-seq (mapping-based and alignment-based modes), single-cell RNA-s
2 shared topics • 1 shared operation
Trinity — de novo transcriptome assembler for RNA-seq data. Reconstructs full-length transcript isoforms without a reference genome using three sequential modules: Inchworm (greedy k-mer assembly), Ch
2 shared topics • 1 shared operation