porchard

Bioinformatician in the @ParkerLab at Michigan Medicine, working on epigenomic, transcriptomic, and single-cell data

University of MichiganUSA

Pinned Repositories

ataqv
A toolkit for QC and visualization of ATAC-seq results.
Language:C++66 8 2910
ATACseq-NextFlow
Language:Nextflow0 2 02
ATACseq-Snakemake
Standard Parker Lab ATAC-seq processing pipeline in Snakemake form
Language:Python2 2 14
get-one2one-orthologues
Fetch 1:1 gene orthologues for two species from Ensembl Compara
Language:R1 2 01
normalize_bedgraph
Normalize bedgraph files
Language:Python3 2 00
per-cluster-atac-processing
Language:Python1 1 00
RNAseq-NextFlow
Language:Nextflow1 2 21
snATACseq-NextFlow
Language:Nextflow3 2 22
snRNAseq-NextFlow
Language:Nextflow2 2 03
wf-single-cell
Language:Python1 0 00

porchard's Repositories

porchard/snATACseq-NextFlow
Language:Nextflow3 2 22
porchard/ATACseq-Snakemake
Standard Parker Lab ATAC-seq processing pipeline in Snakemake form
Language:Python2 2 14
porchard/snRNAseq-NextFlow
Language:Nextflow2 2 03
porchard/get-one2one-orthologues
Fetch 1:1 gene orthologues for two species from Ensembl Compara
Language:R1 2 01
porchard/per-cluster-atac-processing
Language:Python1 1 00
porchard/RNAseq-NextFlow
Language:Nextflow1 2 21
porchard/wf-single-cell
Language:Python1 0 00
porchard/2020-sn-muscle
Language:Shell0 2 03
porchard/2021-03-sn-muscle
Language:HTML0 2 01
porchard/ATACseq-NextFlow
Language:Nextflow0 2 02
porchard/ataqv
A toolkit for QC and visualization of ATAC-seq results.
Language:C++0 1 00
porchard/ataqv-tmp
Language:C++2 0
porchard/biobelt
Language:Python1 0
porchard/crossmap-nextflow
NextFlow implementation of https://github.com/battle-lab/crossmap
Language:Jupyter Notebook1 0
porchard/cta
C++ implementation of Buenrostro adapter trimming
Language:C++1 01
porchard/cta-tmp
Language:C++2 0
porchard/eigenMT
An Efficient Multiple-Testing Adjustment for eQTL Studies that Accounts for Linkage Disequilibrium between Variants
porchard/gtex-pipeline
GTEx & TOPMed data production and analysis pipelines
Language:Python1 0
porchard/liger
R package for integrating and analyzing multiple single-cell datasets
Language:R1 0
porchard/mm
Language:Python1 0
porchard/Multiome-Cluster-NextFlow
Language:R1 02
porchard/Multiome-Doublet-Detection-NextFlow
Language:Python1 12
porchard/Multiome-QC-NextFlow
Language:Python2 03
porchard/muscle-protocols
2 0
porchard/plutils
Utilities I commonly use for my work in the Parker lab.
Language:Python2 0
porchard/pyqtl
Collection of analysis tools for quantitative trait loci
Language:Python0 0
porchard/qtltools
A complete tool set for molecular QTL discovery and analysis
Language:C++1 0
porchard/SCAFE
Single Cell Analysis of Five'Ends
Language:Perl0 0
porchard/snutils
Language:Python2 0
porchard/tensorqtl
Ultrafast GPU-based QTL mapper
Language:Python1 0