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coronaobj

covid-19-bh20

COVID-19 Biohackathon April 5-11 2020

covid-19-hackathon-hub

A collection of hackathons and other projects related to the COVID-19 pandemic.

covid-gene-expression

Hackathon team: gene expression analysis for Covid-19

covid19

As a part of COVID-19 Host Genetics Initiative, we perform the following set of analyses to better understand the genetic basis of COVID-19 susceptibility and severity.

cproject

ArgProcessor and files for basic CMDirectories. Often subclassed. Needs to be separate from euclid and norma

cromwell

Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

cwl-novice-tutorial

cwl-workflow-sars-cov-2

CWL workflows related to virus genomics with focus on SARS-CoV-2

cwl2wdl

Convert CWL to WDL

dash

Data Standards Hackathon for NGS based typing.

dash10

Data Standards Hackathon 10

data-science

Repository will contain example code snippet for all most all machine learning algorithms and statistical testing all implemented into Python and R

data_carp_in_r

dictionaries

Dictionaries for use with `ami` , including some management software

docker-4-bioinformatics

Short Course to get Bioinformaticians at CRUK-CI up-to-speed on Docker

dplyr

dplyr: A grammar of data manipulation

dtw_prions

elife2019

For eLife Sprint 2019

essoildb

Restructuring of Essential Oil Database

five-dollar-genome-analysis-pipeline

Workflows used for germline short variant discovery in WGS data

forestplots

forest plots and software to analyse them

galaxy-hub

Galaxy Community Hub

galaxy2cwl

Standalone version tool to get cwl descriptions (initially an abstract cwl interface) of galaxy workflows and Galaxy workflows executions.

galaxy_blast

Galaxy wrappers for NCBI BLAST+ and related BLAST tools.

galwayecr

Material for invited talk/demo at NUI Galway 2019-04-11

gatk

Official code repository for GATK versions 4 and up

gatk4-cnn-variant-filter

This repo provides workflows that takes advantage of GATKs CNN tool

gatk4-data-processing

Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools

gatk4-germline-snps-indels

Workflows for germline short variant discovery with GATK4