Repositories list

• publication-visium_preprocessing

  Public
  Workflow to make FASTQs, run SpaceRanger count, and bleed correction methods on Visium spatial data.

  Python

  •0•0•0•0•Updated Jan 22, 2025Jan 22, 2025

• publication-islet_glucose_timecourse

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Nov 13, 2024Nov 13, 2024

• nextflow-sc_dge

  Public
  R

  •

  MIT License

  •5•0•1•1•Updated Apr 21, 2024Apr 21, 2024

• snakemake-polygenic_priority_score

  Public
  Python

  •

  MIT License

  •0•1•0•0•Updated Mar 1, 2024Mar 1, 2024

• snakemake-decontx_islet_glucose_timecourse

  Public
  Decontamination script for islet data

  Python

  •0•0•0•0•Updated Feb 28, 2024Feb 28, 2024

• T2D_HuGeAMP_database

  Public
  Data scraped from https://t2d.hugeamp.org/method.html?trait=t2d&dataset=mccarthy

  HTML

  •0•0•0•0•Updated Mar 15, 2023Mar 15, 2023

• flexible_variance_decomposition

  Public
  Flexible variance decomposition

  Python

  •

  MIT License

  •0•0•0•0•Updated Apr 12, 2022Apr 12, 2022

• nf_scrna_deconvolution

  Public
  CellSNP-Vireo deconvolution pipeline, with optional genotype input.

  Nextflow

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Mar 31, 2021Mar 31, 2021

• snakemake-qtl

  Public
  Snakemake pipeline for molecular trait QTL mapping

  Python

  •

  MIT License

  •2•0•0•0•Updated Sep 18, 2020Sep 18, 2020

• vg_wdl

  Public
  Workflow Description Language (WDL) scripts for common vg workflows

  WDL

  •

  MIT License

  •10•0•0•0•Updated Jan 6, 2020Jan 6, 2020

• atac-seq-pipeline

  Public
  ENCODE ATAC-seq pipeline

  Python

  •

  MIT License

  •174•0•0•0•Updated Nov 25, 2019Nov 25, 2019

• chip-seq-pipeline2

  Public
  ENCODE ChIP-seq pipeline

  Python

  •

  MIT License

  •120•0•0•0•Updated Nov 21, 2019Nov 21, 2019