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YangLab@Northwestern

This repo stores the codes for Yang lab projects

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  1. OctopuSV OctopuSV Public

    Merge and compare structural variants across callers, samples, and platforms. Standardizes BND-heavy output from GRIDSS, SvABA, Sniffles, and more.

    Python 51 3

  2. ScanNeo ScanNeo Public

    A pipeline for identifying indel derived neoantigens using RNA-Seq data

    Python 30 7

  3. EasyEvo2 EasyEvo2 Public

    To use Evo2 easily

    Python 26 1

  4. ScanNeo2 ScanNeo2 Public

    Snakemake-based computational workflow for neoantigen prediction from diverse sources

    Python 22 2

  5. pxblat pxblat Public

    PxBLAT: An Efficient and Ergonomic Python Binding Library for BLAT

    C 18 1

  6. ScanExitron ScanExitron Public

    A computational workflow for exitron splicing identification

    Shell 16 6

Repositories

Showing 10 of 31 repositories
  • pxblat Public

    PxBLAT: An Efficient and Ergonomic Python Binding Library for BLAT

    ylab-hi/pxblat's past year of commit activity
    C 18 1 0 0 Updated Oct 16, 2026
  • ChimeraLM Public

    A language model enables accurate structural variant detection in whole-genome amplified long-read sequencing

    ylab-hi/ChimeraLM's past year of commit activity
    Python 4 Apache-2.0 0 0 0 Updated Oct 16, 2026
  • yanglab-guide Public

    The repo contain content about yang's lab guide.

    ylab-hi/yanglab-guide's past year of commit activity
    Python 2 MIT 2 0 33 Updated Oct 16, 2026
  • ScanNeo2 Public

    Snakemake-based computational workflow for neoantigen prediction from diverse sources

    ylab-hi/ScanNeo2's past year of commit activity
    Python 22 MIT 2 26 0 Updated Oct 15, 2026
  • segmeter Public

    Framework designed for evaluating the performance of genomic interval query tools

    ylab-hi/segmeter's past year of commit activity
    Python 2 MIT 0 5 0 Updated Oct 14, 2026
  • DeepChopper Public

    Genomic Language Model Mitigates Chimera Artifacts in Nanopore Direct RNA Sequencing

    ylab-hi/DeepChopper's past year of commit activity
    Rust 12 Apache-2.0 1 0 0 Updated Oct 7, 2026
  • ScanEPIC Public

    Exitron detection in short, long and single-cell RNA datasets

    ylab-hi/ScanEPIC's past year of commit activity
    Python 0 MIT 1 0 0 Updated Oct 1, 2026
  • ScanMST Public

    A multi-segment transcript caller for long-read transcriptome sequencing data

    ylab-hi/ScanMST's past year of commit activity
    Python 2 GPL-3.0 0 0 12 Updated Oct 1, 2026
  • OctopuSV Public

    Merge and compare structural variants across callers, samples, and platforms. Standardizes BND-heavy output from GRIDSS, SvABA, Sniffles, and more.

    ylab-hi/OctopuSV's past year of commit activity
    Python 51 MIT 3 4 14 Updated Sep 23, 2026
  • atroplex Public

    pan-transcriptome splicing isoform analysis

    ylab-hi/atroplex's past year of commit activity
    C++ 6 GPL-3.0 0 5 1 Updated Sep 11, 2026
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