File Ops
File manipulation and management
imaging-data-commons
by jaechang-hits
"Query NCI Imaging Data Commons (IDC) for cancer radiology and pathology imaging datasets hosted on Google Cloud. Search DICOM collections by modality, anatomical site, cancer type, or collection name. Download images via Google Cloud Storage or IDAT tool. 50TB+ of publicly accessible DICOM images. Requires Google Cloud account for large downloads; small queries work without billing. For local DICOM processing use pydicom-medical-imaging; for whole-slide pathology use histolab."
gtars
by jaechang-hits
"GTARS is a Rust-backed Python library for fast genomic token arithmetic and BED file processing. Perform high-performance BED file I/O, genomic interval set operations (intersect, merge, complement, subtract), tokenization of genomic regions against a universe, and universe construction. Use for preprocessing large BED file collections, building token vocabularies for ML pipelines, and computing interval statistics at scale."
encode-database
by jaechang-hits
"Query the ENCODE Portal REST API for regulatory genomics data: TF ChIP-seq experiments, ATAC-seq/DNase-seq accessibility peaks, histone mark tracks, and RNA-seq datasets across 1000+ cell types and tissues. Search experiments by assay, biosample, or target protein; download BED/bigWig files; retrieve candidate cis-regulatory elements (cCREs) from ENCODE SCREEN by genomic region or gene. Use for finding regulatory tracks to annotate variants, identifying open chromatin in a cell type of interest, and downloading peak files for ChIP-seq or ATAC-seq analysis. For regulatory variant scoring use regulomedb-database; for GWAS associations use gwas-database."
featurecounts-rna-counting
by jaechang-hits
"Counts aligned RNA-seq reads overlapping gene features in a GTF annotation. Takes sorted BAM files from STAR alignment and a GTF file; outputs a tab-delimited count matrix per gene across all samples. Handles strandedness (0=unstranded, 1=stranded, 2=reverse-stranded), paired-end, and multi-sample batch counting in a single command. Use Salmon instead for alignment-free quantification; use featureCounts when STAR BAMs already exist and a gene-level count matrix is needed."
flowio-flow-cytometry
by jaechang-hits
"Parse and create FCS (Flow Cytometry Standard) files v2.0-3.1. Read event data as NumPy arrays, extract channel metadata, handle multi-dataset files, export to CSV/FCS. For advanced gating and compensation use FlowKit."
algorithmic-art
by aiskillstore
Creating algorithmic art using p5.js with seeded randomness and interactive parameter exploration. Use this when users request creating art using code, generative art, algorithmic art, flow fields, or particle systems. Create original algorithmic art rather than copying existing artists' work to avoid copyright violations.
canvas-design
by aiskillstore
Create beautiful visual art in .png and .pdf documents using design philosophy. You should use this skill when the user asks to create a poster, piece of art, design, or other static piece. Create original visual designs, never copying existing artists' work to avoid copyright violations.
web-artifacts-builder
by aiskillstore
Suite of tools for creating elaborate, multi-component claude.ai HTML artifacts using modern frontend web technologies (React, Tailwind CSS, shadcn/ui). Use for complex artifacts requiring state management, routing, or shadcn/ui components - not for simple single-file HTML/JSX artifacts.
plugin-structure
by aiskillstore
This skill should be used when the user asks to "create a plugin", "scaffold a plugin", "understand plugin structure", "organize plugin components", "set up plugin.json", "use ${CLAUDE_PLUGIN_ROOT}", "add commands/agents/skills/hooks", "configure auto-discovery", or needs guidance on plugin directory layout, manifest configuration, component organization, file naming conventions, or Claude Code plugin architecture best practices.
skill-creator
by aiskillstore
Guide for creating effective skills. This skill should be used when users want to create a new skill (or update an existing skill) that extends Codex's capabilities with specialized knowledge, workflows, or tool integrations.
internal-comms
by aiskillstore
A set of resources to help me write all kinds of internal communications, using the formats that my company likes to use. Claude should use this skill whenever asked to write some sort of internal communications (status reports, leadership updates, 3P updates, company newsletters, FAQs, incident reports, project updates, etc.).
theme-factory
by aiskillstore
Toolkit for styling artifacts with a theme. These artifacts can be slides, docs, reportings, HTML landing pages, etc. There are 10 pre-set themes with colors/fonts that you can apply to any artifact that has been creating, or can generate a new theme on-the-fly.
writing-hookify-rules
by aiskillstore
This skill should be used when the user asks to "create a hookify rule", "write a hook rule", "configure hookify", "add a hookify rule", or needs guidance on hookify rule syntax and patterns.
docx
by aiskillstore
"Comprehensive document creation, editing, and analysis with support for tracked changes, comments, formatting preservation, and text extraction. When Claude needs to work with professional documents (.docx files) for: (1) Creating new documents, (2) Modifying or editing content, (3) Working with tracked changes, (4) Adding comments, or any other document tasks"
xlsx
by aiskillstore
"Comprehensive spreadsheet creation, editing, and analysis with support for formulas, formatting, data analysis, and visualization. When Claude needs to work with spreadsheets (.xlsx, .xlsm, .csv, .tsv, etc) for: (1) Creating new spreadsheets with formulas and formatting, (2) Reading or analyzing data, (3) Modify existing spreadsheets while preserving formulas, (4) Data analysis and visualization in spreadsheets, or (5) Recalculating formulas"
figma-implement-design
by Kilo-Org
"Translate Figma nodes into production-ready code with 1:1 visual fidelity using the Figma MCP workflow (design context, screenshots, assets, and project-convention translation). Trigger when the user provides Figma URLs or node IDs, or asks to implement designs or components that must match Figma specs. Requires a working Figma MCP server connection."
skill-creator
by Kilo-Org
Guide for creating effective skills. This skill should be used when users want to create a new skill (or update an existing skill) that extends Kilo's capabilities with specialized knowledge, workflows, or tool integrations.
file-organizer
by Kilo-Org
Intelligently organizes your files and folders across your computer by understanding context, finding duplicates, suggesting better structures, and automating cleanup tasks. Reduces cognitive load and keeps your digital workspace tidy without manual effort.
skill-share
by Kilo-Org
A skill that creates new agent skills and automatically shares them on Slack using Rube for seamless team collaboration and skill discovery.
meeting-insights-analyzer
by Kilo-Org
Analyzes meeting transcripts and recordings to uncover behavioral patterns, communication insights, and actionable feedback. Identifies when you avoid conflict, use filler words, dominate conversations, or miss opportunities to listen. Perfect for professionals seeking to improve their communication and leadership skills.
theme-factory
by Kilo-Org
Toolkit for styling artifacts with a theme. These artifacts can be slides, docs, reportings, HTML landing pages, etc. There are 10 pre-set themes with colors/fonts that you can apply to any artifact that has been creating, or can generate a new theme on-the-fly.
gatk-variant-calling
by jaechang-hits
"GATK Best Practices pipeline for germline SNP and indel variant calling from WGS/WES BAM files. Runs HaplotypeCaller in GVCF mode per sample, consolidates with GenomicsDBImport, joint-genotypes with GenotypeGVCFs, and applies VQSR or hard filters. Requires BWA-MEM2-aligned, markdup, and BQSR-processed BAMs. Use DeepVariant instead for a faster deep-learning alternative; GATK is the ENCODE/NIH standard for research and clinical genomics."
pydicom-medical-imaging
by jaechang-hits
"Pure Python DICOM library for medical imaging (CT, MRI, X-ray, ultrasound). Read/write DICOM files, extract pixel data as NumPy arrays, access/modify metadata tags, apply windowing (VOI LUT), anonymize PHI, build DICOM from scratch, process series into 3D volumes. For whole-slide pathology images use histolab; for NIfTI neuroimaging use nibabel."
arxiv-search
by DougTrajano
Search arXiv preprint repository for papers in physics, mathematics, computer science, quantitative biology, and related fields.