Claude Skills by ma-compbio-lab

Use this starter when a task lands in the `Scientific map and dashboard generation` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Spatial interpolation and uncertainty` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to build a deterministic toy climate cube with Xarray and summarize simple spatiotemporal statistics.

Use this starter when a task lands in the `Climate-ecology integration` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Conservation genomics and eDNA` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Ecosystem remote sensing` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to query the official GBIF dataset-search API and summarize a small biodiversity dataset result set.

Use this skill to query the official GBIF API for a canonical species match and a small live occurrence sample.

Use this starter when a task lands in the `Population dynamics and ecological forecasting` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to parse two small Newick trees with `scikit-bio` and summarize a compact topology-comparison result.

Use this starter when a task lands in the `Wildlife sensing and bioacoustics` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `ATAC-seq` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `ChIP-seq` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to generate or inspect a tiny Hi-C contact matrix in Cooler format and summarize its bins and pixel counts in JSON.

Use this starter when a task lands in the `CUT&RUN / CUT&Tag` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to search ENCODE experiments by assay or free-text keyword and return compact metadata summaries for public epigenomics records.

Use this starter when a task lands in the `Footprinting` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to run a deterministic toy peak-calling example with `MACS3 callpeak`.

Use this starter when a task lands in the `Methylation analysis` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Motif analysis` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Multiome integration` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to run a deterministic `bcftools view` filtering example on a tiny VCF and capture the kept variants in a compact JSON summary.

Use this starter when a task lands in the `Comparative genomics` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to resolve a gene symbol to Ensembl IDs and fetch a canonical Ensembl gene record. Do not use it for full transcript annotation pipelines or offline work.

Use this skill to run a deterministic read-QC pass with FastQC and aggregate the result with MultiQC on a tiny FASTQ example.

Use this starter when a task lands in the `Fine mapping` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Germline pipelines` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to run a deterministic local pass over GWAS summary statistics, flag common QC issues, and emit a compact interpretation plan for downstream clumping, heritability, and functional follow-up.

Use this starter when a task lands in the `Long-read genomics` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to align a tiny FASTQ file against a small reference with `minimap2`, sort and index the resulting BAM, and summarize the alignments.

Use this skill to search NCBI Gene by symbol and organism, then fetch compact official Entrez Gene summaries. Do not use it for variant interpretation, transcript-level modeling, or bulk offline annotation.

Use this starter when a task lands in the `Phylogenomics` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Polygenic risk scoring` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to read a small SAM, BAM, or CRAM file with `pysam`, summarize core alignment statistics, and optionally emit an indexed BAM artifact for downstream debugging or demos.

Use this starter when a task lands in the `Quantification` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Somatic pipelines` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to compute deterministic MinHash signatures for two tiny DNA sequences with sourmash and summarize their similarity in compact JSON.

Use this starter when a task lands in the `Variant calling` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Cluster-safe installs` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `CPU / memory tuning` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `GPU jobs` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `I/O-aware workflows` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Interactive debug workflows` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Multi-node jobs` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Scratch-space usage` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this skill to submit a tiny real Slurm job array, wait for terminal accounting, and summarize per-task outputs in compact JSON.

Use this skill to render, submit, and inspect a minimal Slurm smoke job before submitting heavier workloads on a real cluster.

Use this skill to submit a tiny probe job, capture live `squeue` snapshots while it waits or runs, and then summarize final `sacct` accounting.

Use this starter when a task lands in the `Cell tracking` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.

Use this starter when a task lands in the `Microscopy pipelines` frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.