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@abdenlab

Abdennur Lab

Lab for Genomic Data Science

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  1. oxbow oxbow Public

    Read specialized NGS formats as data frames in R, Python, and more.

    Rust 70 8

  2. dask-ngs dask-ngs Public

    Scalable access to bioinformatics data with Dask and Oxbow

    Python 1 3

  3. VCFormer VCFormer Public

    Read and flatten VCF data into DataFrames

    Python 4

  4. ipylangchat ipylangchat Public

    Simple Jupyter chat UI for LangChain

    Jupyter Notebook 11 2

Repositories

Showing 10 of 17 repositories
  • oxbow Public

    Read specialized NGS formats as data frames in R, Python, and more.

    abdenlab/oxbow’s past year of commit activity
    Rust 70 Apache-2.0 8 10 5 Updated Apr 11, 2025
  • jointly-hic Public

    Genomics research toolkit for jointly embedding Hi-C 3D chromatin contact matrices into the same vector space

    abdenlab/jointly-hic’s past year of commit activity
    Python 0 GPL-3.0 0 0 0 Updated Apr 11, 2025
  • tcga-db Public

    Local database of TCGA metadata

    abdenlab/tcga-db’s past year of commit activity
    Python 0 0 0 0 Updated Jan 20, 2025
  • datashader Public Forked from holoviz/datashader

    Quickly and accurately render even the largest data.

    abdenlab/datashader’s past year of commit activity
    Python 0 BSD-3-Clause 377 0 0 Updated Jan 6, 2025
  • ldsc-python3 Public Forked from bulik/ldsc

    LD Score Regression (LDSC)

    abdenlab/ldsc-python3’s past year of commit activity
    Python 2 GPL-3.0 354 0 3 Updated Oct 31, 2024
  • snakemake-executor-plugin-lsf Public Forked from BEFH/snakemake-executor-plugin-lsf

    A Snakemake executor plugin for submitting jobs to a LSF cluster

    abdenlab/snakemake-executor-plugin-lsf’s past year of commit activity
    Python 0 MIT 6 0 1 Updated Aug 7, 2024
  • ipylangchat Public

    Simple Jupyter chat UI for LangChain

    abdenlab/ipylangchat’s past year of commit activity
    Jupyter Notebook 11 MIT 2 0 1 Updated Jul 3, 2024
  • eigen-tour Public
    abdenlab/eigen-tour’s past year of commit activity
    JavaScript 1 MIT 1 0 1 Updated May 19, 2024
  • deepC Public Forked from rschwess/deepC

    A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence

    abdenlab/deepC’s past year of commit activity
    HTML 0 GPL-3.0 12 0 0 Updated Apr 12, 2024
  • dask-ngs Public

    Scalable access to bioinformatics data with Dask and Oxbow

    abdenlab/dask-ngs’s past year of commit activity
    Python 1 MIT 3 1 5 Updated Mar 4, 2024
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