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Maftools — R package for analyzing somatic mutations from cancer sequencing (MAF files). Provides oncoplots for mutation visualization, clonality analysis, tumor burden estimation, mutational signatur
Use with AI
Install the MCP server or CLI to instantly fetch Maftools documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/maftools
Cyrius — CYP2D6 star allele genotyping from whole-genome sequencing data. Call CYP2D6 diplotypes (*1/*2, *4/*5) from BAM/CRAM files for pharmacogenomics clinical reporting. Handles CYP2D6/CYP2D7 fusio
2 shared topics • 3 shared operations
LINX — structural variant annotation and visualization tool from the Hartwig Medical Foundation hmftools suite. Interprets structural variants and copy number data to classify driver events including
2 shared topics • 3 shared operations
Broad Institute tools — access Terra cloud genomics platform, GSEA/MSigDB gene set enrichment analysis, GenePattern workflow server, Picard sequencing utilities, and FireBrowse TCGA data portal progra
3 shared topics • 1 shared operation
Use when working with Kilosort — the GPU-accelerated spike sorting software for high-density extracellular electrophysiology recordings. Covers Kilosort4 (Python, PyTorch-based), probe/channel map con
3 shared topics • 1 shared operation
medaka -- neural network-based tool from Oxford Nanopore Technologies for creating consensus sequences and calling variants from nanopore sequencing data. Polishes draft assemblies from Flye, miniasm,
3 shared topics • 1 shared operation