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Use when working with stageR, the Bioconductor R package for stage-wise testing in RNA-seq transcriptomics. Covers two-stage testing workflows for differential expression (DESeq2/edgeR/limma-voom) and
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Install the MCP server or CLI to instantly fetch stageR documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/stager
DRIMSeq is a Bioconductor R package for Differential Transcript Usage (DTU) analysis using a Dirichlet-multinomial distribution to model transcript-level count proportions. Tests whether relative tran
3 shared topics • 1 shared operation
Detects gene fusions and other structural rearrangements from RNA-Seq data.
3 shared topics
STAR-Fusion — detects candidate fusion transcripts from RNA-seq data using STAR alignments and the FusionInspector validation framework. Integrates with CTAT genome resource libraries for comprehensiv
3 shared topics
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
3 shared topics
TCGAbiolinks for searching, downloading, and analyzing cancer genomics data from the NCI Genomic Data Commons (GDC). Routes tasks for GDCquery/GDCdownload, data preparation with GDCprepare, differenti
2 shared topics • 1 shared operation