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bio-workflows-metagenomics-pipeline
End-to-end metagenomics workflow from FASTQ to taxonomic and functional profiles. Covers Kraken2 classification, Bracken abundance estimation, and HUMAnN functional profiling. Use when profiling metagenomic samples.
laravel-plugin-discovery
Discover and evaluate Laravel packages via LaraPlugins.io MCP. Use when the user wants to find plugins, check package health, or assess Laravel/PHP compatibility.
awesome-repo-builder
Generates a topic-specific GitHub awesome-list repository scaffold, complete with a polished README, contribution rules, AI-agent instructions, URL verification, license, and reusable templates. Ideal for creating new awesome repos, curated lists, or topic resource catalogs from a given topic and optional criteria.
bio-write-sequences
Write biological sequences to files (FASTA, FASTQ, GenBank, EMBL) using Biopython Bio.SeqIO. Use when saving sequences, creating new sequence files, or outputting modified records.
bio-workflows-somatic-variant-pipeline
End-to-end somatic variant calling from tumor-normal paired samples using Mutect2 or Strelka2. Covers preprocessing, variant calling, filtering, and annotation for cancer genomics. Use when calling somatic mutations from tumor-normal pairs.
biopython-sequence-analysis
Biopython sequence analysis: parse FASTA/FASTQ/GenBank/GFF (SeqIO), NCBI Entrez (esearch/efetch/elink), remote/local BLAST, pairwise/MSA alignment (PairwiseAligner, MUSCLE/ClustalW), phylogenetic trees (Phylo). Use for gene family studies, phylogenomics, comparative genomics, NCBI pipelines. For PCR/restriction/cloning use biopython-molecular-biology; for SAM/BAM use pysam.
cancer-research-figure-guide
Cancer Research (AACR) figures: resolution (300-1200 DPI), formats (EPS/TIFF/AI), hierarchical panel labels (Ai, Aii, Bi), figure/table limits, legend requirements with replicate counts.
bio-workflows-somatic-variant-pipeline
End-to-end somatic variant calling from tumor-normal paired samples using Mutect2 or Strelka2. Covers preprocessing, variant calling, filtering, and annotation for cancer genomics. Use when calling somatic mutations from tumor-normal pairs.
biokernel
Biomedical OS Core & MCP Server
biologist-analyst
"Analyzes living systems and biological phenomena through biological lens using evolution, molecular biology,
biomcp-server
MCP bio bridge
biomni-general-agent
Use the local Biomni checkout to orchestrate its 150+ biomedical tools, databases, and know-how workflows for complex research questions.