Name: Jason Kwong
Type: User
Company: Doherty Applied Microbial Genomics
Bio: Infectious Diseases Physician & Early Career Research Fellow
Location: University of Melbourne at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia
afa-core
Generates lists of core/non-core sites from a multi-FASTA alignment for ClonalFrameML
cfml-maskrc
Masks recombinant regions in an alignment based on ClonalFrameML output
contig-puller
Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence
draw-snps
Plots heatmap of SNPs
extract_core_snps
Extracts core SNPs from a metagenome for strain-level resolution
fa-mask
Masks specified regions in FASTA sequences
fa-rename
Renames headers in FASTA file
fa-reverse
Reverse complement FASTA sequence
fastablasta
Python blastn wrapper
fix-prokka-header
Fixes header in .gbk files generated by Prokka
fq-plots
Estimates and displays read depth and insert size plots
gene-puller
Reworked version of Torsten Seemann's gene-puller.pl script. Retrieves aligned gene sequences from assemblies.
genome-map
Draw genome coverage map
invariant-sites
Counts invariant/variant and masks variant sites from multi-FASTA alignment
kraken-extract
Extract sequences classified as specified taxa
lissero
In silico serotype prediction for Listeria monocytogenes
maskrc-svg
Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG
mlst-cc
Identifies similar MLST profiles from the same clonal complex
mrods
Microbial Regions Of Difference / Synteny (RODS) - ABPHM17 Hackathon project
ng23s-mutations
Identifies mutations in 1-4 copies of the 23S rRNA gene in Neisseria gonorrhoeae
ngamr
Detection of antimicrobial resistance (AMR) in Neisseria gonorrhoeae (NG)
ngmaster
In silico multi-antigen sequence typing for Neisseria gonorrhoeae (NG-MAST)
nullarbor-shovill
Runs nullarbor using shovill for assemblies
nullarbor-snippy-core
Runs snippy-core on a subset of isolates included in a Nullarbor run
nw_leafnames
Rename external nodes (leaves) in a newick tree
nw_multi2bifurcation
Resolves multifurcation / polytomy in Newick trees eg. from FastTree
nw_scale-distances
Converts/scales distances in newick trees
pilon-correct
Corrects PacBio assemblies using Illumina short-reads
readfinder
Simple shell script to locate reads in a directory and format listing for various purposes
rename-reads
Creates symlinks to rename reads for either parsing to Nullarbor or for uploading to SRA/ENA
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
An Open Source Machine Learning Framework for Everyone
Django
The Web framework for perfectionists with deadlines.
Laravel
A PHP framework for web artisans
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
Some thing interesting about web. New door for the world.
A server is a program made to process requests and deliver data to clients.
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
Some thing interesting about visualization, use data art
Some thing interesting about game, make everyone happy.
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
Microsoft
Open source projects and samples from Microsoft.
Google
Google ❤️ Open Source for everyone.
Alibaba
Alibaba Open Source for everyone
D3
Data-Driven Documents codes.
Tencent
China tencent open source team.
