Skip to content
Agentmart
Submit a tool

Alternatives to celltype-specificity-profiler

celltype-specificity-profiler is an agent skill by Jacky Siu: Given a gene and a single-cell atlas, compute how cell-type-specific its expression is — the tau specificity index, Sarle's expression bimodality coefficient…. If it doesn't fit your setup, these 12 agent skills cover similar ground. They are ordered by how closely they match celltype-specificity-profiler and by our rank, which weighs adoption, freshness and documentation; money never changes the order. scrna-embedding leads the list (repository has 1.2K stars; open source (MIT)). Each entry shows data reasons to switch, and you can open a side-by-side comparison with celltype-specificity-profiler.

Updated Oct 26, 2026 · Built from catalog data; how we rank and grade

You're replacing

celltype-specificity-profiler

Given a gene and a single-cell atlas, compute how cell-type-specific its expression is — the tau specificity index, Sarle's expression bimodality coefficient…

12 alternatives

Ordered by how closely each matches celltype-specificity-profiler (shared product, category or stated alternative) and by rank.

  1. 1
    scrna-embedding

    Yonghao Zhao

    Local scVI/scANVI-based single-cell latent embedding and batch-aware integration from raw-count .h5ad or 10x Matrix Market input, with stable integrated…

    • Repository has 1.2K stars
    • Open source (MIT)

    ★ 1.2KLast active Sep 11, 2026Claude Code, Claude apps, Codex, Cursor +6

  2. 2
    complexa-target

    Ohad Mosafi <omosafi@nvidia.com>

    Add, edit, inspect, or validate Proteina-Complexa target definitions for protein binders, ligand binders, and AME motif scaffolding.

    • Larger repository (3.7K stars)

    ★ 3.7KLast active Oct 21, 2026Claude Code, Claude apps, Codex, Cursor +6

  3. 3
    rfd4-proteina-nim

    NVIDIA BioNeMo <bionemofeedback@nvidia.com>

    Run RFD4-Proteina NIM for joint protein structure and sequence design, conditioned generation, and reward-guided search using the NVIDIA hosted API or a…

    • Larger repository (3.7K stars)

    ★ 3.7KLast active Oct 21, 2026Claude Code

  4. 4
    polars-bio

    ClawBio (adapted from K-Dense scientific-agent-skills/polars-bio)

    Fast genomic interval operations (overlap, nearest, merge, coverage, cluster, complement, subtract, count-overlaps), multi-format bioinformatics I/O…

    • Repository has 1.2K stars
    • Active in the last 30 days

    ★ 1.2KLast active Sep 25, 2026Claude Code, Claude apps, Codex, Cursor +6

  5. 5
    ukb-ppp-region-fetch

    ClawBio

    Fetch a regional slice of plasma pQTL summary statistics from the UK Biobank Pharma Proteomics Project (UKB-PPP; Sun 2023 Nature) for a specific (protein…

    • Repository has 1.2K stars
    • Active in the last 30 days

    ★ 1.2KLast active Oct 22, 2026Claude Code, Claude apps, Codex, Cursor +6

  6. 6
    arrayexpress-fetch

    Nikolai Hecker, UK Dementia Research Institute

    Query metadata and download data from ArrayExpress, EMBL-EBI's functional genomics collection, now hosted inside BioStudies.

    • Repository has 1.2K stars
    • Active in the last 30 days

    ★ 1.2KLast active Oct 2, 2026Claude Code, Claude apps, Codex, Cursor +6

  7. 7
    struct-predictor

    ClawBio

    Protein structure prediction with Boltz-2 (default) or OpenFold3.

    • Repository has 1.2K stars
    • Active in the last 30 days

    ★ 1.2KLast active Oct 5, 2026Claude Code, Claude apps, Codex, Cursor +6

  8. 8
    rare-high-impact-variants

    Manuel Corpas

    Count rare, high-impact loss-of-function variants carried in a VCF, annotated with molecular consequence and population allele frequency

    • Repository has 1.2K stars
    • Active in the last 30 days

    ★ 1.2KLast active Oct 19, 2026Claude Code, Claude apps, Codex, Cursor +6

  9. 9
    organ-aging-studio

    ClawBio hackathon contributor

    Interactive Goeminne proteomic aging clock with organ filters and per-protein contribution breakdown (protein NPX × coefficient).

    • Repository has 1.2K stars
    • Active in the last 30 days

    ★ 1.2KLast active Oct 19, 2026Claude Code, Claude apps, Codex, Cursor +6

  10. 10
    lit-synthesizer

    Sooraj (github.com/sooraj-codes)

    Search PubMed and bioRxiv for bioinformatics literature, synthesise results into a structured report, and build a citation graph — all locally, with a…

    • Repository has 1.2K stars
    • Active in the last 30 days

    ★ 1.2KLast active Oct 20, 2026Claude Code, Claude apps, Codex, Cursor +6

  11. 11
    nvmolkit-usage

    Kevin Boyd (@scal444)

    Use when writing or debugging nvMolKit Python code for GPU-accelerated RDKit fingerprints, similarity, conformers, clustering, and molecular searches.

    • Larger repository (3.7K stars)

    ★ 3.7KLast active Sep 23, 2026Claude Code, Claude apps, Codex, Cursor +6

  12. 12
    xena-tcga-gene-query

    lishensuo

    Query TCGA tumor biology through the ucscxenatoolspy API.

    • Repository has 1.2K stars
    • Open source (MIT)

    ★ 1.2KLast active Sep 11, 2026Claude Code, Claude apps, Codex, Cursor +6

Related