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Databio

Solving problems in computational biology

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  1. pepatac pepatac Public

    A modular, containerized pipeline for ATAC-seq data processing

    R 54 14

  2. COCOA COCOA Public

    Annotating epigenetic variation among samples with region sets in R

    R 10

  3. LOLAweb LOLAweb Public

    An interactive Shiny web application for genomic interval enrichment analysis using LOLA.

    R 16 2

  4. awesome-atac-analysis awesome-atac-analysis Public

    Links to ATAC-seq analysis tools

    50 6

  5. MIRA MIRA Public

    R package for Methylation-based Inference of Regulatory Activity

    R 11 1

  6. pypiper pypiper Public

    Python toolkit for building restartable pipelines

    Python 46 9

Repositories

Showing 10 of 94 repositories
  • bedhost Public

    API and UI for BEDbase

    databio/bedhost’s past year of commit activity
    TypeScript 2 BSD-2-Clause 1 7 0 Updated Nov 7, 2024
  • bbconf Public

    Configuration package for bedbase project

    databio/bbconf’s past year of commit activity
    Python 1 BSD-2-Clause 2 3 0 Updated Nov 7, 2024
  • bedboss Public

    Python pipeline for processing BED files for BEDbase

    databio/bedboss’s past year of commit activity
    Python 1 BSD-2-Clause 0 14 (1 issue needs help) 2 Updated Nov 7, 2024
  • gtars Public

    Performance-critical tools to manipulate, analyze, and process genomic interval data. Primarily focused on building tools for geniml - our genomic machine learning python package.

    databio/gtars’s past year of commit activity
    Rust 3 1 15 4 Updated Nov 5, 2024
  • bedbase Public

    Aggregate, analyze, and serve genomic regions.

    databio/bedbase’s past year of commit activity
    Jupyter Notebook 4 0 7 1 Updated Oct 27, 2024
  • bulker Public

    Manager for multi-container computing environments

    databio/bulker’s past year of commit activity
    Jupyter Notebook 24 BSD-2-Clause 2 21 (1 issue needs help) 2 Updated Oct 20, 2024
  • geniml Public

    Genomic interval machine learning

    databio/geniml’s past year of commit activity
    Python 17 BSD-2-Clause 1 2 0 Updated Oct 18, 2024
  • bedms Public

    tool for standardization of genomics/epigenomics metadata

    databio/bedms’s past year of commit activity
    Python 3 BSD-2-Clause 0 2 1 Updated Oct 15, 2024
  • pepatac Public

    A modular, containerized pipeline for ATAC-seq data processing

    databio/pepatac’s past year of commit activity
    R 54 BSD-2-Clause 14 46 2 Updated Oct 11, 2024
  • hub.bulker.io Public

    Bulker registry

    databio/hub.bulker.io’s past year of commit activity
    HTML 5 BSD-2-Clause 1 4 0 Updated Oct 9, 2024

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