Explore skills

Detects and removes contamination in genome assemblies via two disjoint workflows - foreign-sequence screening of a single-organism (eukaryote/isolate) assembly with NCBI FCS-GX (GenBank-submission-mandatory), FCS-adaptor, and BlobToolKit blob plots; and MAG/bin quality assessment with CheckM2 plus GUNC (chimerism) plus GTDB-Tk taxonomy, judged against MIMAG. Covers why CheckM2 alone is blind to d

Radiology Reporter

Pose-conditioned generation on RunComfy via the `runcomfy` CLI. Routes across Kling 2-6 Motion Control Pro / Standard (transfer the motion / blocking of a reference video onto a target character), community Wan 2-2 Animate (audio-driven character animation with pose conditioning), and Z-Image Turbo ControlNet LoRA (pose-conditioned image generation from an OpenPose / DWPose / canny / depth control

Pose-conditioned generation on RunComfy via the `runcomfy` CLI. Routes across Kling 2-6 Motion Control Pro / Standard (transfer the motion / blocking of a reference video onto a target character), community Wan 2-2 Animate (audio-driven character animation with pose conditioning), and Z-Image Turbo ControlNet LoRA (pose-conditioned image generation from an OpenPose / DWPose / canny / depth control

Search GitHub issues, pull requests, and discussions across any repository. Activates when researching external dependencies (whisper.cpp, NAudio), looking for similar bugs, or finding implementation examples.

BED file format fundamentals, creation, validation, and basic operations. Covers BED3 through BED12 formats, coordinate systems, sorting, and format conversion using bedtools and pybedtools. Use when working with genomic coordinates or preparing interval files for downstream tools.

Performs proximity operations on genomic intervals with bedtools (closest, window, flank, slop) and pybedtools - nearest-feature queries with signed/strand-aware distance, fixed-radius window searches, strand-aware promoter construction, and interval extension. Covers the closest -d/-D a/b/ref/-t/-k/-io/-iu/-id flags, the -D ref strand sign-flip, silent chromosome-end clipping in slop/flank, -t al

Persistent memory systems for LLM conversations including short-term, long-term, and entity-based memory Use when: conversation memory, remember, memory persistence, long-term memory, chat history.

Core interval arithmetic operations including intersect, subtract, merge, complement, map, and groupby using bedtools and pybedtools. Use when finding overlapping regions, removing overlaps, combining adjacent intervals, or transferring annotations between interval files.

Find nearest features, search within windows, and extend intervals using closest, window, flank, and slop operations. Use when performing TSS proximity analysis, assigning enhancers to genes, defining promoter regions, or finding nearby genomic features.

Automate ConvertKit (Kit) tasks via Rube MCP (Composio): manage subscribers, tags, broadcasts, and broadcast stats. Always search tools first for current schemas.

Balance, normalize, and transform Hi-C contact matrices using cooler and cooltools. Apply iterative correction (ICE), compute expected values, and generate observed/expected matrices. Use when normalizing or transforming Hi-C matrices.