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.
ATACseq-NextFlow
ATACseq-Snakemake
Standard Parker Lab ATAC-seq processing pipeline in Snakemake form
get-one2one-orthologues
Fetch 1:1 gene orthologues for two species from Ensembl Compara
normalize_bedgraph
Normalize bedgraph files
per-cluster-atac-processing
RNAseq-NextFlow
snATACseq-NextFlow
snRNAseq-NextFlow
wf-single-cell
porchard's Repositories
porchard/ATACseq-Snakemake
Standard Parker Lab ATAC-seq processing pipeline in Snakemake form
porchard/snATACseq-NextFlow
porchard/snRNAseq-NextFlow
porchard/get-one2one-orthologues
Fetch 1:1 gene orthologues for two species from Ensembl Compara
porchard/per-cluster-atac-processing
porchard/RNAseq-NextFlow
porchard/wf-single-cell
porchard/2020-sn-muscle
porchard/2021-03-sn-muscle
porchard/ATACseq-NextFlow
porchard/ataqv
A toolkit for QC and visualization of ATAC-seq results.
porchard/ataqv-tmp
porchard/biobelt
porchard/crossmap-nextflow
NextFlow implementation of https://github.com/battle-lab/crossmap
porchard/cta
C++ implementation of Buenrostro adapter trimming
porchard/cta-tmp
porchard/gtex-pipeline
GTEx & TOPMed data production and analysis pipelines
porchard/liger
R package for integrating and analyzing multiple single-cell datasets
porchard/mm
porchard/Multiome-Cluster-NextFlow
porchard/Multiome-Doublet-Detection-NextFlow
porchard/Multiome-QC-NextFlow
porchard/muscle-protocols
porchard/plutils
Utilities I commonly use for my work in the Parker lab.
porchard/pyqtl
Collection of analysis tools for quantitative trait loci
porchard/qtltools
A complete tool set for molecular QTL discovery and analysis
porchard/SCAFE
Single Cell Analysis of Five'Ends
porchard/snutils
porchard/tensorqtl
Ultrafast GPU-based QTL mapper
porchard/WASP
WASP: allele-specific pipeline for unbiased read mapping and molecular QTL discovery