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tooluniverse-synthetic-biology-parts
Look up synthetic biology genetic parts (promoters, RBS, CDS/genes, terminators, reporters, composite devices) from the SynBioHub repository, including the iGEM Registry of Standard Biological Parts. Use when someone asks to "find a genetic part", "look up a BioBrick", "search SynBioHub", "get the sequence for BBa_...", "browse iGEM part collections", "find…
bio-atac-seq-nucleosome-positioning
Map nucleosome center positions, occupancy, and fuzziness from ATAC-seq fragment-size patterns using NucleoATAC, ATACseqQC, DANPOS3, or scprinter. Use when characterizing nucleosome organization at promoters and enhancers, calling +1/-1 nucleosomes flanking NFRs, generating V-plots for chromatin structure visualization, or comparing nucleosome positioning b…
bio-atac-seq-nucleosome-positioning
Extract nucleosome positions from ATAC-seq data using NucleoATAC, ATACseqQC, and fragment analysis. Use when analyzing chromatin organization, identifying nucleosome-free regions at promoters, or characterizing nucleosome occupancy patterns from ATAC-seq fragment size distributions.
bio-chipseq-peak-annotation
Annotate ChIP-seq peaks to genomic features and genes using ChIPseeker. Assign peaks to promoters, exons, introns, and intergenic regions. Find nearest genes and calculate distance to TSS. Generate annotation plots and statistics. Use when annotating ChIP-seq peaks to genomic features.
csat-nps-analysis
Analyse CSAT / NPS / CES survey results and turn the score into actions. Use when asked to analyse NPS, CSAT, or CES data, compute an NPS score, interpret survey verbatims, or build a voice-of-customer readout. Produces a readout — the computed score, the trend & benchmark, themed analysis of the comments (what drives promoters vs. detractors), and prioriti…
genomic-feature-annotation
This skill is used to perform genomic feature annotation and visualization for any file containing genomic region information using Homer (Hypergeometric Optimization of Motif EnRichment). It annotates regions such as promoters, exons, introns, intergenic regions, and TSS proximity, and generates visual summaries of feature distributions. ChIPseeker mode is…
genomic-feature-annotation
This skill is used to perform genomic feature annotation and visualization for any file containing genomic region information using Homer (Hypergeometric Optimization of Motif EnRichment). It annotates regions such as promoters, exons, introns, intergenic regions, and TSS proximity, and generates visual summaries of feature distributions. ChIPseeker mode is…
plannotate-plasmid-annotation
Auto-annotate plasmids with features (promoters, terminators, resistance, origins, tags, fluorescent proteins) via BLAST against curated DBs (Addgene, fpbase, SnapGene). FASTA or raw sequence in; annotated GenBank, interactive HTML maps, CSV tables out. Handles circular topology. Use to verify synthetic constructs, prep Addgene submissions, share maps, or b…
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