skanwal
Bioinformatics scientist at the University of Melbourne Centre for Cancer Research
The University of MelbourneMelbourne, Australia
Pinned Repositories
CV
GATK-CaseStudy
GATK Variant Calling Workflow using Galaxy, CWL and Cpipe
RLadiesMelbInc_2020
cwl-ica
A collection of cwl-ica workflows along with a user guide for the commands to use and contributions guide
infrastructure
Infrastructure as Code at UMCCR
RNAsum
Pipeline for generating RNAseq-based cancer patient reports
workflows
UMCCR production workflows
skanwal's Repositories
skanwal/GATK-CaseStudy
GATK Variant Calling Workflow using Galaxy, CWL and Cpipe
skanwal/CV
skanwal/RLadiesMelbInc_2020
skanwal/10June2022-collab-example
Carpentries exercise
skanwal/2018-06-16_Introduction-to-R-workshop
Workshop material
skanwal/2019-0912-It-takes-a-spark
skanwal/amgit
Modified version of Pro Git
skanwal/bcbio-nextgen
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
skanwal/bcbio-validation-checker
Compare validation outputs from bcbio against existing truth sets
skanwal/bio-cwl-tools
skanwal/bioconda-recipes
Conda recipes for the bioconda channel.
skanwal/blair-walden-project
The Blair Walden Project: in 1845 Henry David Thoreau went to live in the woods... a year later his journal was found.
skanwal/calc
A simple python calculator
skanwal/dotfiles
skanwal/GATK-Arvados-Trial
skanwal/gvl-melbgenomics-deploy
Scripts for creating flavours of Cpipe and LOVD for the GVL
skanwal/janis
skanwal/live-demo
skanwal/MegaQC
Web application to collect and visualise data across multiple MultiQC runs.
skanwal/mosdepth
fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
skanwal/novice-tutorial-exercises
skanwal/NPM-sample-qc
https://c-big.github.io/NPM-sample-qc
skanwal/Play
The expert in anything was once a beginner!!!
skanwal/presentations
skanwal/regexcite
skanwal/tools-iuc
Tool Shed repositories maintained by the Intergalactic Utilities Commission
skanwal/umccrise
Bcbio results umccrization
skanwal/vcf-venn
A tool to compare variants contained within multiple vcf format files, to determine common and unique variants to each file. To write these variants to a new file also in vcf format.
skanwal/wgs-sample-qc
Repository to host ongoing discussions by GHIF members on developing a reference implementation for QC of WGS results
skanwal/workflows
Community maintained workflows & tools (with examples)