The Parker Lab at the University of Michigan

Pinned Repositories

ATACseq-Snakemake
Standard Parker Lab ATAC-seq processing pipeline in Snakemake form
Language:Python6 4 01
atactk
A toolkit for working with ATAC-seq data.
Language:Python24 7 54
ataqv
A toolkit for QC and visualization of ATAC-seq results.
Language:C++66 8 2910
bioinf525
ATAC-seq lab for BIOINF525
Language:Shell10 4 010
bioinf545
ATAC-seq lab for BIOINF545
Language:Shell25 5 013
BMO
BMO - a tool for predicting TF binding from ATAC-seq data
Language:R9 5 31
drmr
A tool for submitting pipeline scripts to distributed resource managers.
Language:Python3 3 02
islet_sci-ATAC-seq_2019
Code accompanying Islet sci-ATAC-seq project
Language:Python6 3 13
STARR-seq-Analysis-Pipeline
Commands Template and Module for Automated Analysis of STARR-seq data.
Language:Python4 3 01
YAMDA
Yet Another Motif Discovery Algorithm
Language:Python2 3 00

The Parker Lab at the University of Michigan's Repositories

ParkerLab/ataqv
A toolkit for QC and visualization of ATAC-seq results.
Language:C++66 8 2910
ParkerLab/bioinf545
ATAC-seq lab for BIOINF545
Language:Shell25 5 013
ParkerLab/atactk
A toolkit for working with ATAC-seq data.
Language:Python24 7 54
ParkerLab/bioinf525
ATAC-seq lab for BIOINF525
Language:Shell10 4 010
ParkerLab/BMO
BMO - a tool for predicting TF binding from ATAC-seq data
Language:R9 5 31
ParkerLab/ATACseq-Snakemake
Standard Parker Lab ATAC-seq processing pipeline in Snakemake form
Language:Python6 4 01
ParkerLab/islet_sci-ATAC-seq_2019
Code accompanying Islet sci-ATAC-seq project
Language:Python6 3 13
ParkerLab/STARR-seq-Analysis-Pipeline
Commands Template and Module for Automated Analysis of STARR-seq data.
Language:Python4 3 01
ParkerLab/drmr
A tool for submitting pipeline scripts to distributed resource managers.
Language:Python3 3 02
ParkerLab/2021_islet-rfx6
Code for Walker, Saunders, Rai et al., (2021).
Language:Roff2 3 00
ParkerLab/chromatin_information
A companion repository to our chromatin information manuscript
Language:Python2 3 01
ParkerLab/cta
C++ implementation of Buenrostro adapter trimming
Language:C++2 3 25
ParkerLab/encodegsc
Genome Structure Correction
Language:Python2 3 02
ParkerLab/PillowNet
U-Net for genomics
Language:Python2 1 0
ParkerLab/YAMDA
Yet Another Motif Discovery Algorithm
Language:Python2 3 00
ParkerLab/2020-sn-muscle
Language:Shell1 1 02
ParkerLab/ataqv-2019
Language:Python1 3 0
ParkerLab/danforth-2018
Recreate the computational analyses from Orchard, White, Thomas et al
Language:Python1 4 0
ParkerLab/magic_final
MAGIC glycemic GWAS enrichment in annotations
Language:Rebol1 3 01
ParkerLab/mka
A tool for generating analysis pipelines from templates.
Language:Python1 3 01
ParkerLab/regulatoryAnnotations_comparisons
Comparison of Super/Stretch enhancers, HOT regions and Broad Domains.
Language:Jupyter Notebook1 4 0
ParkerLab/2021-03-sn-muscle
Language:HTML1 0
ParkerLab/dna_protein_contacts
Language:Python4 01
ParkerLab/GenomeLoader
A lightweight tool for loading genomic data in deep learning applications
Language:Python1 0
ParkerLab/homebrew-tap
Homebrew tap for software from the Parker Lab at the University of Michigan
Language:Ruby3 1
ParkerLab/islet_cage
Analyses of human pancreatic islet CAGE data
Language:Python1 0
ParkerLab/Multiome-Doublet-Detection-NextFlow
ParkerLab/sn_muscle_2023
Code for snATAC + snRNA analyses
Language:Python0 0
ParkerLab/snRNAseq-NextFlow
Language:Nextflow0 0