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    44 repositories

    • segway

      Public
      Application for semi-automated genomic annotation.
      pythonannotationgenomics-visualization
      pythonannotationgenomics-visualizationepigenomicsgenomics-data-visualization
      Shell
      •
      GNU General Public License v2.0
      •8•18•95•3•Updated Apr 16, 2026Apr 16, 2026

    • newmap

      Public
      Tools for genome mappability
      Python
      •
      GNU General Public License v3.0
      •0•4•1•0•Updated Mar 25, 2026Mar 25, 2026

    • genomedata

      Public
      The Genomedata format for storing large-scale functional genomics data.
      C
      •
      GNU General Public License v2.0
      •1•2•41•1•Updated Nov 21, 2025Nov 21, 2025

    • 2024ibis-challenge

      Public
      Python
      •0•0•0•0•Updated Oct 7, 2025Oct 7, 2025

    • umap

      Public
      Python
      •4•32•12•1•Updated Jul 8, 2025Jul 8, 2025

    • segzoo

      Public
      Python
      •
      GNU General Public License v2.0
      •1•2•0•0•Updated Jun 23, 2025Jun 23, 2025

    • colorbrewer

      Public
      Python
      •
      Other
      •0•1•0•0•Updated Feb 26, 2025Feb 26, 2025

    • nour

      Public
      Lab notebook for my Fall 2023 rotation in the Hoffman Lab
      0•0•0•0•Updated Nov 10, 2023Nov 10, 2023

    • semi-supervised-segway-workflow

      Public
      Snakemake workflow to reproduce the results from "Semi-supervised segmentation and genome annotation".
      Python
      •
      Other
      •0•0•0•0•Updated Sep 5, 2023Sep 5, 2023

    • polyidus

      Public
      Polyidus provides a framework to catch chimeric DNA sequences with a tale of python
      Python
      •
      GNU General Public License v3.0
      •3•10•3•0•Updated Jul 14, 2023Jul 14, 2023

    • cytomod

      Public
      Python
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Jun 28, 2023Jun 28, 2023

    • allmytexs

      Public
      Shell
      •
      GNU General Public License v3.0
      •1•2•1•0•Updated Jun 3, 2023Jun 3, 2023

    • pdfcomments

      Public
      Python
      •9•129•6•0•Updated Jun 2, 2023Jun 2, 2023

    • BEHST-2022

      Public
      Shell
      •
      GNU General Public License v2.0
      •2•0•0•0•Updated May 19, 2023May 19, 2023

    • dnamod

      Public
      HTML
      •
      GNU General Public License v2.0
      •3•1•1•0•Updated May 4, 2023May 4, 2023

    • segtools

      Public
      Package for analysis of genomic segmentations.
      Python
      •
      GNU General Public License v2.0
      •0•0•34•0•Updated Apr 12, 2023Apr 12, 2023

    • peako

      Public
      Software for finding transcription factor binding motifs using knockout controls, in CUT&RUN data.
      bioinformatics
      bioinformatics
      Python
      •
      Other
      •0•3•0•0•Updated Mar 17, 2023Mar 17, 2023

    • cla

      Public
      Tools for Cell Lineage Analysis
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jan 6, 2023Jan 6, 2023

    • virchip

      Public
      Python
      •
      GNU General Public License v3.0
      •2•3•0•0•Updated Jun 8, 2022Jun 8, 2022

    • acidbio

      Public
      Python
      •1•14•1•0•Updated Jun 3, 2022Jun 3, 2022

    • claweb

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Apr 26, 2022Apr 26, 2022

    • 2020behst

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Apr 8, 2022Apr 8, 2022

    • 2022modTFBSs

      Public
      Public repository of additional scripts used in our expanded alphabet manuscript.
      Python
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Mar 18, 2022Mar 18, 2022

    • 2020spikein

      Public
      All code pertaining to the "Sensitive and reproducible cell-free methylome quantification with synthetic spike-in controls" manuscript
      HTML
      •2•0•0•0•Updated Feb 10, 2022Feb 10, 2022

    • 2021_hESC_3D_Genome

      Public
      0•0•0•0•Updated Nov 30, 2021Nov 30, 2021

    • skrrf

      Public
      Cython
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Nov 30, 2021Nov 30, 2021

    • pdfuris

      Public
      Python
      •0•0•1•0•Updated Aug 31, 2021Aug 31, 2021

    • genomedata-mailing-list-archive

      Public
      Archive of the Genomedata University of Washington mailing list
      0•0•0•0•Updated Nov 18, 2020Nov 18, 2020

    • segway-mailing-list-archives

      Public
      Archive of the Segway University of Washington mailing list
      0•1•0•0•Updated Nov 18, 2020Nov 18, 2020

    • mccf1

      Public
      R
      •0•4•0•0•Updated May 20, 2020May 20, 2020
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