deanpettinga

academic-kickstart

alpine-singularity

test singularity definition

bbcRNA

bbcRNA: An R package for facilitating RNA-Seq analysis

bbcRNA-singularity

biscuit_blaster

CDseq

Circle Damage Sequencing (CD-seq) Analysis workflow

chipseq_workflow

containers

cptac_singularity

deanpettinga.github.io

personal website

demultiplex

Code for demultiplexing NovaSeq, NextSeq and iSeq. There is also a separate script for single-cell atac-seq

docker-bamtofastq

docker-bbcRNA

docker-beadarrayfiles

docker image recipe for gtc conversion with Illumina/BeadArrayFiles

docker-streampipe

docker-TEtranscripts

ecc_caller

ecc_caller is a pipeline designed to take Illumina NovaSeq paired end sequencing reads generated from isolated circular DNA and call eccDNA forming regions.

ecc_workflow

edger-singularity

singularity container for edgeR

exome_somatic_snv

call somatic SNVs from whole exome sequence using tumor only (no matched normal)

iaap-cli

personal_website

rna-seq-star-deseq2

RNA-seq workflow using STAR and DESeq2

rnaseq_workflow

snakemake workflow for bulk RNA-seq workflow using STAR-edgeR

scrnaseq_workflow

subset-bam