Search Skills
Search across 54932 indexed skills
bio-chipseq-visualization
Reference examples tested with: GenomicRanges 1.54+, deepTools 3.5+ Before using code patterns, verify installed versions match. If versions differ: R...
tcga-preprocessing
Follow this skill to recreate the preprocessing routine from ttcga.ipynb. It automates loading TCGA downloads, generating raw/normalised matrices, ini...
bio-read-qc-adapter-trimming
Reference examples tested with: FastQC 0.12+, Trimmomatic 0.39+, cutadapt 4.4+, fastp 0.23+ Before using code patterns, verify installed versions matc...
universal-single-cell-annotator
This skill wraps multiple cell type annotation strategies into a single Python class. It allows agents to flexibly choose between rule-based (markers)...
biologist-analyst
Analyze living systems, biological phenomena, and life sciences questions through the disciplinary lens of biology, applying established frameworks (e...
ontology-mapper
Translate real-world materials science descriptions into standardized ontology annotations. Given terms like "FCC copper" or structured data like {"ma...
bio-duplicate-handling
Mark and remove PCR/optical duplicates using samtools. PCR duplicates are identical copies of the same original molecule, created during library prepa...
chatehr-clinician-assistant
AI software for clinicians to interact with patient medical records via natural language queries and automatic chart summarization. Rapid Review: "Sum...
bio-phasing-imputation-reference-panels
BASEURL="http://ftp.1000genomes.ebi.ac.uk/vol1/ftp/datacollections/1000G2504highcoverage/working/202010283202phased" for chr in {1..22}; do wget ${BAS...
bio-rna-quantification-tximport-workflow
Import transcript-level estimates from Salmon, kallisto, or other quantifiers into R for gene-level differential expression analysis. library(tximport...
clinvar-database
ClinVar is NCBI's freely accessible archive of reports on relationships between human genetic variants and phenotypes, with supporting evidence. The d...
biokernel
The BioKernel is the central orchestration layer of the Biomedical OS, managing context, routing tasks to specialized agents via MCP (Model Context Pr...