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Generate highly accurate HiFi long reads from PacBio SMRT sequencing data using Circular Consensus Sequencing (CCS). Use this skill when working with PacBio subreads BAM files to produce consensus rea
Use with AI
Install the MCP server or CLI to instantly fetch pbccs (CCS) documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/pbccs
buttery-eel — streaming Guppy/Dorado basecaller wrapper for Oxford Nanopore SLOW5/BLOW5 format long-read sequencing data. Streams reads from SLOW5 or BLOW5 files directly through a running Guppy serve
2 shared topics • 1 shared operation
Use when working with nf-core/nanoseq — a reproducible Nextflow pipeline for Oxford Nanopore Technology (ONT) long-read sequencing data. Covers basecalling (Guppy/Dorado), alignment (minimap2), QC (Na
2 shared topics • 1 shared operation
Remora is an Oxford Nanopore Technologies (ONT) tool for modified base calling from nanopore sequencing data. Trains neural network models to detect base modifications (5mC, 5hmC, m6A, pseudouridine,
2 shared topics • 1 shared operation
Getz Lab tools (ABSOLUTE, MuTect/MuTect2) from the Broad Institute for cancer genomics. ABSOLUTE infers tumor purity, ploidy, and absolute copy numbers from segmented copy number data. MuTect2 (GATK4)
1 shared topic • 2 shared operations
SvABA -- structural variant and indel caller using genome-wide local assembly. Detects deletions, insertions, duplications, inversions, and complex rearrangements from short-read (Illumina) whole-geno
1 shared topic • 2 shared operations