stevekm

IGV-snapshot-automator

Script to automatically create and run IGV snapshot batchscripts

nextflow-demos

Example Nextflow pipelines and programming techniques

reference-annotations

Makefile for reference annotations for genes & genomic regions

dotfiles

Custom .bashrc, custom logger script

fastq-split

program for splitting a fastq file into separate files

toolbox

handy scripts & notes for reference

duh

human readable disk usage reporting

nf-core-modules

Repository to host tool-specific module files for the Nextflow DSL2 community!

transcript-converter-go

nf-niceutils

nice utility methods for Nextflow pipelines

pg-elk

Example Postgres database connection to Kibana via ElasticSearch and Logstash

bobs-pipeline

Bob's Burgers Hamburger Making Nextflow Pipeline

dupefinder

program to find duplicate files

go-env

Quick setup for a conda based Golang development environment

hashsnail

program to crack hash values

helix_filters_01

Workflows for post-pipeline data processing and file generation

mysql-elk

demo of using MySQL + Logstash and ELK

nextflow-plugins-registry

Nextflow plugins index repository

nf-hello

Nextflow plugin implementation skeleton

nf-plugin-template

An unofficial template to build Nextflow Plugins

nf-prov

nf-test

Simple test framework for Nextflow pipelines

pluto

Utilities for pluto-cwl and helix_filters repos

pluto-cwl

CWL workflows for helix filter scripts

pytest-workflow

Configure workflow/pipeline tests using yaml files.

renv-Docker-conda

demo of usage of R renv with Docker and conda / mamba

squish

fastq file compression program

test-nf-plugin1

transcript-converter

unittest-parallel-demo

how to run Python unittest test cases in parallel