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    • Python
      MIT License
      1072Updated Jan 8, 2026Jan 8, 2026
    • .github

      Public
      0000Updated Dec 9, 2025Dec 9, 2025
    • R
      1000Updated Aug 14, 2025Aug 14, 2025
    • runLola

      Public
      Shell
      0000Updated May 28, 2025May 28, 2025
    • R
      0000Updated May 28, 2025May 28, 2025
    • Instructions on how to perform chromatin accessibility data pre-processing and analyses (focusing on bulk ATAC-seq)
      Python
      MIT License
      0100Updated Apr 29, 2025Apr 29, 2025
    • RepeatEnrichment

      Public
      Repeat enrichment analysis
      R
      0100Updated Apr 23, 2024Apr 23, 2024
    • MEMOS

      Public
      Mutation Enrichment of Motifs
      R
      GNU General Public License v3.0
      0200Updated Nov 15, 2023Nov 15, 2023
    • DUnCAN_issues

      Public
      To record bugs on DuNCAN
      0000Updated Oct 2, 2023Oct 2, 2023
    • Shell
      0000Updated Mar 27, 2023Mar 27, 2023
    • Code, analysis, and results for Hawley, Zhou, et al., Cancer Research, 2021.
      HTML
      GNU General Public License v3.0
      0000Updated Mar 8, 2023Mar 8, 2023
    • From Shalini Bahl
      R
      0000Updated Nov 11, 2022Nov 11, 2022
    • CUT-RUN

      Public
      Shell
      0000Updated Oct 5, 2022Oct 5, 2022
    • cap-tcr

      Public
      cap-tcr
      Python
      1000Updated Jul 7, 2022Jul 7, 2022
    • CoBE

      Public
      code for executables on HPC
      Shell
      Apache License 2.0
      0000Updated Mar 2, 2022Mar 2, 2022
    • 0000Updated Feb 9, 2022Feb 9, 2022
    • Python
      0000Updated Feb 9, 2022Feb 9, 2022
    • 0000Updated Feb 9, 2022Feb 9, 2022
    • 0000Updated Mar 9, 2021Mar 9, 2021
    • singularity container for 10X data processing
      MIT License
      1000Updated May 14, 2020May 14, 2020
    • Pre-processing of the GENCODE human genome annotation
      Python
      MIT License
      0000Updated Mar 10, 2020Mar 10, 2020
    • Zhou_FOXA1_ncomm_2020

      Public archive
      Plots, code, and analyses for Zhou et al, Nature Communications, 2020
      R
      GNU General Public License v3.0
      0100Updated Jan 24, 2020Jan 24, 2020
    • Instructions on how to perform bisulfite sequencing data pre-processing and analyses
      Python
      MIT License
      0000Updated Jan 17, 2020Jan 17, 2020
    • SMURF

      Public
      Significantly Mutated Region Finder
      R
      GNU General Public License v3.0
      1610Updated Jan 11, 2019Jan 11, 2019
    • C3D

      Public
      Cross Cell-type Correlation in DNaseI hypersensitivity
      Shell
      GNU General Public License v3.0
      6000Updated Aug 27, 2018Aug 27, 2018
    • VSE

      Public
      Varient Set Enrichment
      Perl
      3000Updated Aug 1, 2017Aug 1, 2017
    • ABC

      Public
      Allele-specific Binding from Chip-seq
      Perl
      9000Updated Aug 1, 2017Aug 1, 2017
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