Pinned Repositories
binCrisp
Find CRISPRS in genomes using pilercr & draws a matrix
BRIG
BRIG is a cross-platform (Windows/Mac/Unix) application that can display circular comparisons between a large number of genomes, with a focus on handling genome assembly data.
Dryad-SA
Stand alone version of DRYAD - A simple phylogenomics helper script
listentoeverything
Scrapes reddits for music, creates a spotify playlist.
prokka2vcontact
qi-irida-uploader
Sequence file uploader for IRIDA
qi-irida-utils
Helper scripts for working with IRIDA
seqhandler
subhelper
helper scripts for submission to ena (microbial + sarscov2) and gisaid (sarscov2 only)
VFDB
Virulence factors & Islands
happykhan's Repositories
happykhan/binCrisp
Find CRISPRS in genomes using pilercr & draws a matrix
happykhan/qi-irida-utils
Helper scripts for working with IRIDA
happykhan/listentoeverything
Scrapes reddits for music, creates a spotify playlist.
happykhan/microreact-cookbook
happykhan/ronaQC
Quality control of SARSCOV2 genomic data using mapped reads (bam)
happykhan/ronasub
Helper scripts for merging and submitting SARSCOV data to ENA, NCBI, COG
happykhan/aioli
Framework for building fast genomics web tools with WebAssembly and WebWorkers
happykhan/amrwatch-metrics
happykhan/assembly_qc
Assembly QC guidelines, based on what we've seen before.
happykhan/bioconda-recipes
Conda recipes for the bioconda channel.
happykhan/bioinformatics-handbook
How to speak bioinformatician
happykhan/ClermonTyping
Clermont PCR method In-Silico
happykhan/dataflo-cookbook
happykhan/docs
happykhan/EToKi
all methods related to Enterobase
happykhan/happykhan-web
happykhan/hashtest
happykhan/hoard
happykhan/hoard-web
happykhan/ictv-scripts
Scripts for parsing ICTV forms
happykhan/irida
Canada’s Integrated Rapid Infectious Disease Analysis Platform for Genomic Epidemiology
happykhan/journal
Citation lists
happykhan/journalbot
Source code for Journal club bot at https://twitter.com/JC_pathogenomic
happykhan/metaclean
happykhan/nf-mashup
I dunno, something runs mash and makes NJ trees.
happykhan/nf-phylotyping
happykhan/nmlst
happykhan/pHierCC
Hierarchical clustering of cgMLST
happykhan/pubwatch
happykhan/wombatyper