mdbabumiamssm
Publisher on askill
Deep learning framework (PyTorch Lightning). Organize PyTorch code into LightningModules, configure Trainers for multi-GPU/TPU, implement data pipelines, callbacks, logging (W&B, TensorBoard), distrib...
Full-stack computational software development for biomedical and life science applications. Use when building or refactoring research software, LLM-enabled analysis platforms, scientific web apps, dat...
Myeloproliferative neoplasm research support across JAK2, CALR, MPL, PPM1D, megakaryocyte biology, fibrosis, clonal evolution, and translational oncology. Use when synthesizing MPN literature, structu...
Practical next-generation sequencing analysis support for bulk RNA-seq, variant calling, alignment, preprocessing, and workflow assembly. Use when working from FASTQ or BAM/VCF inputs, setting up QC,...
Model Context Protocol (MCP) server for bioinformatics web services like GEO, STRING, and UCSC Cell Browser.
Design citation-grounded biomedical retrieval and generation systems for literature-heavy assistants. Use when building or improving PubMed or PMC search pipelines, hybrid retrieval, claim-to-citation...
PLINK file formats, format conversion, and quality control filtering for population genetics. Convert between VCF, BED/BIM/FAM, and PED/MAP formats, apply MAF, genotyping rate, and HWE filters using P...
Use when the user asks to generate, remix, poll, list, download, or delete Sora videos via OpenAI’s video API using the bundled CLI (`scripts/sora.py`), including requests like “generate AI video,” “S...
AI-powered T-cell receptor repertoire analysis for cancer diagnosis, immunotherapy response prediction, and therapeutic TCR selection using deep learning and multi-layer ML approaches.
Download sequencing data from NCBI SRA using the SRA toolkit. Use when downloading FASTQ files from SRA accessions, prefetching large datasets, or validating SRA downloads.
Two-tier memory system that makes Claude a true workplace collaborator. Decodes shorthand, acronyms, nicknames, and internal language so Claude understands requests like a colleague would. CLAUDE.md f...
"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, .ts...
End-to-end GWAS workflow from VCF to association results. Covers PLINK QC, population structure correction, and association testing for case-control or quantitative traits. Use when running genome-wid...
Bead-based normalization for CyTOF and high-parameter flow cytometry. Covers EQ bead normalization, signal drift correction, and batch normalization. Use when correcting instrument drift in CyTOF or h...
Perform language and framework specific security best-practice reviews and suggest improvements. Trigger only when the user explicitly requests security best practices guidance, a security review/repo...
Load gene expression count matrices from various formats including CSV, TSV, featureCounts, Salmon, kallisto, and 10X. Use when importing quantification results for downstream analysis.
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