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@seqcode

seqcode

Collection of projects related to DNA sequencing data processing & regulatory genomics analyses

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  1. miniMDS miniMDS Public

    Python 29 9

  2. allo allo Public

    Allo: a multi-mapped read rescue strategy for gene regulatory analyses

    Python 23 2

  3. cross-species-domain-adaptation cross-species-domain-adaptation Public

    Codebase for the domain adaptation (cross-species TF binding prediction) project.

    Jupyter Notebook 12 6

  4. sequnwinder sequnwinder Public

    SeqUnwinder: a platform for deconvolving motifs associated with genomic labels

    Java 7

  5. chexmix chexmix Public

    ChExMix: the ChIP-exo mixture model

    Java 7

  6. seqcode-core seqcode-core Public

    SeqCode: Java code for the analysis of high-throughput sequencing data

    Java 6 4

Repositories

Showing 10 of 40 repositories
  • pegr Public

    Platform for Eukaryotic Genome Regulation

    seqcode/pegr’s past year of commit activity
    Groovy 3 MIT 1 32 (1 issue needs help) 0 Updated Nov 18, 2024
  • seqcode-core Public

    SeqCode: Java code for the analysis of high-throughput sequencing data

    seqcode/seqcode-core’s past year of commit activity
    Java 6 MIT 4 0 0 Updated Nov 17, 2024
  • seqchromloader Public

    Provide ready-to-use dataloader for deep learning models

    seqcode/seqchromloader’s past year of commit activity
    Python 3 0 0 0 Updated Nov 5, 2024
  • allo Public

    Allo: a multi-mapped read rescue strategy for gene regulatory analyses

    seqcode/allo’s past year of commit activity
    Python 23 MIT 2 1 0 Updated Sep 5, 2024
  • miniMDS Public
    seqcode/miniMDS’s past year of commit activity
    Python 29 MIT 9 5 0 Updated Jun 30, 2024
  • Micro-C-Pipelines Public

    This repository contains pipelines developed for processing Micro-C data

    seqcode/Micro-C-Pipelines’s past year of commit activity
    Python 0 1 0 0 Updated Jun 15, 2024
  • Bichrom-GAT-Scripts Public

    Repository for Bichrom-GAT scripts

    seqcode/Bichrom-GAT-Scripts’s past year of commit activity
    Python 0 1 0 0 Updated May 25, 2024
  • chromdisco Public Forked from jmschrei/tfmodisco-lite

    A fork of tfmodisco for chromatin interpretation

    seqcode/chromdisco’s past year of commit activity
    Python 0 MIT 16 0 0 Updated Apr 15, 2024
  • Bichrom-Regression Public Forked from seqcode/Bichrom

    Transcription factor binding strength prediction by deep neural network

    seqcode/Bichrom-Regression’s past year of commit activity
    Python 1 MIT 4 0 0 Updated Feb 2, 2024
  • iFox-mES Public

    UCSC trackhub links for Mahony lab iFox ChIP-exo analysis

    seqcode/iFox-mES’s past year of commit activity
    Python 1 MIT 1 0 0 Updated Sep 29, 2023
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