Pinned Repositories
BioD
A D library for computational biology and bioinformatics
artic_utils
simple scripts and utilities for processing SARS-CoV-2
biogems.info
Tools for keeping track of biogems through http://biogems.info/
bioruby-cd-hit-report
A bioruby wrapper for parsing and reading CD-HIT cluster reports
bioruby-dbla-classifier
This plugin extends Bioruby's AminoAcid sequence class by adding methods for analysing PfEMP1 DBL-alpha sequence tags
bioruby-isoelectric_point
A bioruby plugin for calculating the isoelectric point of a protein
FastqcQualityReports
Uses ggplot2 to provide improved plots for FastQC read quality data
GuideScaff
A prototypical scaffolding pipeline for genomic assemblies.
knykode
Provide postal,telephone and other Kenyan common codes
pipelines
bash scripts and pipelines for various local tasks
george-githinji's Repositories
george-githinji/knykode
Provide postal,telephone and other Kenyan common codes
george-githinji/artic_utils
simple scripts and utilities for processing SARS-CoV-2
george-githinji/africa-covid19-genomics
Invite only repo to share code, data and info to reproduce.
george-githinji/artic-ebov
Repository of documents and data for Ebola virus
george-githinji/artic-ncov2019
ARTIC nanopore protocol for nCoV2019 novel coronavirus
george-githinji/asmngs20
ASMNGS20 - 2020 Conference Details
george-githinji/BioD
D modules for computational biology and bioinformatics
george-githinji/civet
george-githinji/coastal-kenya-covid-genomics
george-githinji/highlineR
An implementation of LANL's Highlighter web app in R for batch processing and scaling
george-githinji/javascript-algorithms
📝 Algorithms and data structures implemented in JavaScript with explanations and links to further readings
george-githinji/metaWRAP
MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis
george-githinji/ncov
Nextstrain build for novel coronavirus SARS-CoV-2
george-githinji/ncov-KE
george-githinji/ncov-kenya
Example build configuration for SARS-CoV-2 analysis for Kenya
george-githinji/ncov2019-artic-nf
A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), with a focus on ncov2019
george-githinji/OUCRU_bioinformatics_training
Materials for bioinformatics training at Oxford University Clinical Research Unit
george-githinji/paper_2018_primalseq-ivar
george-githinji/patho-sequence-resource
george-githinji/phyloflow
Workflow manager for phylogenetic pipelines
george-githinji/primalscheme
primalscheme is a tool for designing primer panels for multiplex PCR.
george-githinji/ProblematicSites_SARS-CoV2
george-githinji/Project-Based-Tutorials-in-C
A curated list of project-based tutorials in C
george-githinji/raxml-ng
RAxML Next Generation: faster, easier-to-use and more flexible
george-githinji/sars-cov-2-early-phase-manuscript
Tracking the introduction and spread of SARS-CoV-2 in coastal Kenya
george-githinji/SARS-CoV-2_Sequencing
george-githinji/Sequence-manipulation
A range of different perl scripts for manipulating sequences, conducting alignments, consensus sequences, changing formats
george-githinji/StatsWithJuliaBook
george-githinji/useful-scripts
common useful script
george-githinji/VOC_manuscript
Genomic epidemiology of SARS-CoV-2 variants of concern in Kenya