happykhan

@quadram-institute-bioscience Norwich, UK

Pinned Repositories

binCrisp
Find CRISPRS in genomes using pilercr & draws a matrix
Language:Python5 2 23
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.
Language:Java25 5 315
Dryad-SA
Stand alone version of DRYAD - A simple phylogenomics helper script
Language:Python10
listentoeverything
Scrapes reddits for music, creates a spotify playlist.
Language:Python1 3 00
prokka2vcontact
Language:Python3 2 10
qi-irida-uploader
Sequence file uploader for IRIDA
Language:Python21
qi-irida-utils
Helper scripts for working with IRIDA
Language:Python30
seqhandler
Language:Python53
subhelper
helper scripts for submission to ena (microbial + sarscov2) and gisaid (sarscov2 only)
Language:Python5 4 11
VFDB
Virulence factors & Islands
Language:Python31

happykhan's Repositories

happykhan/binCrisp
Find CRISPRS in genomes using pilercr & draws a matrix
Language:Python5 2 23
happykhan/subhelper
helper scripts for submission to ena (microbial + sarscov2) and gisaid (sarscov2 only)
Language:Python5 4 11
happykhan/qi-irida-utils
Helper scripts for working with IRIDA
Language:Python30
happykhan/listentoeverything
Scrapes reddits for music, creates a spotify playlist.
Language:Python1 3 00
happykhan/microreact-cookbook
1
happykhan/nabtools
Language:JavaScript1
happykhan/nf-klebtest
Language:Nextflow1
happykhan/ronaQC
Quality control of SARSCOV2 genomic data using mapped reads (bam)
Language:JavaScript1 3 30
happykhan/ronasub
Helper scripts for merging and submitting SARSCOV data to ENA, NCBI, COG
Language:Python1 3 0
happykhan/aioli
Framework for building fast genomics web tools with WebAssembly and WebWorkers
Language:JavaScript2 0
happykhan/assembly_qc
Assembly QC guidelines, based on what we've seen before.
happykhan/bioinformatics-handbook
How to speak bioinformatician
Language:HTML
happykhan/ClermonTyping
Clermont PCR method In-Silico
happykhan/dataflo-cookbook
happykhan/docs
happykhan/EToKi
all methods related to Enterobase
Language:Python1 0
happykhan/happykhan-web
Language:MDX
happykhan/hashtest
happykhan/hoard
Language:Python2 0
happykhan/ictv-scripts
Scripts for parsing ICTV forms
Language:Python
happykhan/irida
Canada’s Integrated Rapid Infectious Disease Analysis Platform for Genomic Epidemiology
Language:Java3 0
happykhan/journal
Citation lists
Language:HTML
happykhan/journalbot
Source code for Journal club bot at https://twitter.com/JC_pathogenomic
Language:Python4 41
happykhan/metaclean
Language:Python
happykhan/nf-mashup
I dunno, something runs mash and makes NJ trees.
Language:Nextflow
happykhan/nf-phylotyping
Language:Shell
happykhan/pHierCC
Hierarchical clustering of cgMLST
Language:Python
happykhan/pubwatch
Language:Python1
happykhan/sgtest
Language:Nextflow3 0
happykhan/wombatyper
Language:Perl