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@GMOD Generic Model Organism Database Project

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    144 repositories

    • jb2hubs

      Public
      Source code for the JBrowse 2 genome hubs webite and data processing scripts
      TypeScript
      •
      Other
      •0•0•4•1•Updated Nov 15, 2026Nov 15, 2026

    • jbrowse-components

      Public
      Source code for JBrowse 2, a modern React-based genome browser
      visualizationbioinformaticsgenomics
      visualizationbioinformaticsgenomicsjbrowse
      TypeScript
      •
      Apache License 2.0
      •90•298•47•5•Updated Nov 15, 2026Nov 15, 2026

    • gff-nostream

      Public
      TypeScript
      •
      MIT License
      •0•2•0•1•Updated Nov 15, 2026Nov 15, 2026

    • cram-js

      Public
      Read CRAM v3 and v2 in node or in the browser
      genomics
      genomics
      C
      •
      MIT License
      •9•18•0•0•Updated Nov 15, 2026Nov 15, 2026

    • bam-js

      Public
      Parse BAM and BAM index files in javascript for node and the browser
      TypeScript
      •
      MIT License
      •9•27•4•0•Updated Nov 15, 2026Nov 15, 2026

    • vcf-js

      Public
      VCF (variant call format) parser
      TypeScript
      •
      MIT License
      •4•26•1•1•Updated Nov 15, 2026Nov 15, 2026

    • ucsc-hub-js

      Public
      read and write UCSC track and assembly hub files in node or the browser
      TypeScript
      •
      MIT License
      •1•5•5•1•Updated Nov 15, 2026Nov 15, 2026

    • twobit-js

      Public
      Read .2bit files with pure JS. Works in node or webpack.
      TypeScript
      •
      MIT License
      •1•4•0•1•Updated Nov 15, 2026Nov 15, 2026

    • tubemap-core

      Public
      Tube map layout for pangenome graph paths and reads: shapes out, no DOM or d3
      TypeScript
      •
      MIT License
      •0•0•0•0•Updated Nov 15, 2026Nov 15, 2026

    • trix-js

      Public
      Read UCSC Trix indexes in pure JavaScript
      TypeScript
      •
      Apache License 2.0
      •2•0•0•0•Updated Nov 15, 2026Nov 15, 2026

    • tabix-js

      Public
      Read Tabix-indexed files, either with .tbi or .csi indexes, in node or the browser
      TypeScript
      •
      MIT License
      •4•14•0•1•Updated Nov 15, 2026Nov 15, 2026

    • shared-read-cache

      Public
      next gen of abortable-promise-cache
      TypeScript
      •
      MIT License
      •0•0•0•0•Updated Nov 15, 2026Nov 15, 2026

    • range-cache-filehandle

      Public
      A filehandle that caches byte ranges in chunks and coalesces adjacent reads into one request
      TypeScript
      •
      MIT License
      •0•0•0•0•Updated Nov 15, 2026Nov 15, 2026

    • p2s_mapper

      Public
      Protein sequence to structure mapper
      TypeScript
      •
      MIT License
      •0•0•0•0•Updated Nov 15, 2026Nov 15, 2026

    • newick

      Public
      Newick parsing and stack-safe tree traversals, with no dependencies
      TypeScript
      •
      MIT License
      •0•0•0•0•Updated Nov 15, 2026Nov 15, 2026

    • nclist-js

      Public
      Read JBrowse v1 nested containment list feature stores from modern JS
      TypeScript
      •
      MIT License
      •0•0•0•1•Updated Nov 15, 2026Nov 15, 2026

    • jexl

      Public
      fork of TomFrost/jexl for jbrowse use
      TypeScript
      •
      MIT License
      •0•0•0•0•Updated Nov 15, 2026Nov 15, 2026

    • ixixx-js

      Public
      TypeScript
      •
      MIT License
      •2•3•1•0•Updated Nov 15, 2026Nov 15, 2026

    • inflate-js

      Public
      Fast DEFLATE decompression via wasm libdeflate, inlined as a single bundle
      Shell
      •
      MIT License
      •0•1•0•0•Updated Nov 15, 2026Nov 15, 2026

    • indexedfasta-js

      Public
      Read FASTA files indexed with .fai indexes. Also supports BGZIP+.gzi
      TypeScript
      •
      MIT License
      •3•11•0•0•Updated Nov 15, 2026Nov 15, 2026

    • hic

      Public
      Read .hic contact matrix files in node or the browser
      TypeScript
      •
      Other
      •0•0•0•0•Updated Nov 15, 2026Nov 15, 2026

    • hclust

      Public
      Hierarchical clustering in javascript
      TypeScript
      •
      MIT License
      •0•2•0•0•Updated Nov 15, 2026Nov 15, 2026

    • ggtubemap

      Public
      Pangenome tube maps (sequenceTubeMap) as ggplot2 layers in R
      JavaScript
      •
      Other
      •0•0•0•0•Updated Nov 15, 2026Nov 15, 2026

    • generic-filehandle2

      Public
      modernization of the original generic-filehandle, no Buffer polyfill needed
      TypeScript
      •0•0•0•0•Updated Nov 15, 2026Nov 15, 2026

    • gbz-base-js

      Public
      Pure TypeScript reader for gbz-base pangenome databases (.gbz.db) over HTTP range requests
      TypeScript
      •
      Other
      •0•0•0•0•Updated Nov 15, 2026Nov 15, 2026

    • g2p_mapper

      Public
      TypeScript
      •
      MIT License
      •1•0•0•0•Updated Nov 15, 2026Nov 15, 2026

    • faidx-js

      Public
      Index a FASTA file similar to `samtools faidx` using pure js
      TypeScript
      •
      MIT License
      •0•2•0•0•Updated Nov 15, 2026Nov 15, 2026

    • domains2genome

      Public
      TypeScript
      •0•1•0•0•Updated Nov 15, 2026Nov 15, 2026

    • bed-js

      Public
      A parser for the BED format including autoSql support
      TypeScript
      •
      MIT License
      •0•5•1•1•Updated Nov 15, 2026Nov 15, 2026

    • bbi-js

      Public
      Parser for bigwig and bigbed files
      TypeScript
      •
      MIT License
      •6•9•2•0•Updated Nov 15, 2026Nov 15, 2026
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