Agent Skills Directory

Deep learning for single-cell analysis using scvi-tools. This skill should be used when users need (1) data integration and batch correction with scVI/scANVI, (2) ATAC-seq analysis with PeakVI, (3) CITE-seq multi-modal analysis with totalVI, (4) multiome RNA+ATAC analysis with MultiVI, (5) spatial transcriptomics deconvolution with DestVI, (6) label transfer and reference mapping with scANVI/scArches, (7) RNA velocity with veloVI, or (8) any deep learning-based single-cell method. Triggers include mentions of scVI, scANVI, totalVI, PeakVI, MultiVI, DestVI, veloVI, sysVI, scArches, variational autoencoder, VAE, batch correction, data integration, multi-modal, CITE-seq, multiome, reference mapping, latent space.

Run nf-core bioinformatics pipelines (rnaseq, sarek, atacseq) on sequencing data. Use when analyzing RNA-seq, WGS/WES, or ATAC-seq data—either local FASTQs or public datasets from GEO/SRA. Triggers on nf-core, Nextflow, FASTQ analysis, variant calling, gene expression, differential expression, GEO reanalysis, GSE/GSM/SRR accessions, or samplesheet creation.

When the user wants to write, improve, or build a sequence of B2B cold outreach emails to prospects who haven't asked to hear from them. Use when the user mentions 'cold email,' 'cold outreach,' 'prospecting emails,' 'SDR emails,' 'sales emails,' 'first touch email,' 'follow-up sequence,' or 'email prospecting.' Also use when they share an email draft that sounds too sales-y and needs to be humanized. Distinct from email-sequence (lifecycle/nurture to opted-in subscribers) — this is unsolicited outreach to new prospects. NOT for lifecycle emails, newsletters, or drip campaigns (use email-sequence).