idolawoye Goto Github PK

2017-04-03-adv-r-progr-embl

Advanced R programming course at EMBL, 3-4 April 2017

artic-ncov2019

ARTIC nanopore protocol for nCoV2019 novel coronavirus

bactopia

A flexible pipeline for complete analysis of bacterial genomes

bagep

A pipeline for Bacterial Whole genome sequence data analysis

cookiecutter-snakemake-workflow

A cookiecutter template for Snakemake workflows

deepvariant

Google's DeepVariant variant caller as a Nextflow pipeline

docker-builds

:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics

docker_builds_dev

docker build dev

idolawoye.github.io

Personal website

mabs

mtbseq_source

MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.

nextflow

A DSL for data-driven computational pipelines

ngs-rnaseq-training

Hands-On training 2015

nigeria-covid-19

Geospatial data for the Nigerian novel coronavirus confirmed cases. Data are manually curated from http://covid19.ncdc.gov.ng/

nigeria_nextstrain

Nextstrain build for Nigerian SARS-CoV-2 genomes

pointfinder

primers

primers for all kinds of projects

python-functions-and-modules

Python3 teaching materials for functions and modules (1 day)

sars-cov-2_multi-pcr_v1.0

SARS-CoV-2 analysis pipeline for multiplex-PCR MPS(Massive Parrallel Sequencing) data

sequence-upload-to-gs

Incremental upload of Illumina sequencing runs to GS from a companion computer, or directly from Linux-based Illumina sequencers

shiny-examples

tb

Tb outbreak study built with nextstrain

tb-sputum

Protocol and lab notes for TB sequencing project

titan

Public health bioinformatics repository for WDL workflows to analyze viral genomes.

treemaker

A python script that takes alignment file and builds a phylogeny tree.

vcf_heatmap

R script for VCF visualisation