The Walter and Eliza Hall Institute of Medical Research
Bahlo laboratory statistical genetics software development
The Walter & Eliza Hall Institute of Medical Research, Melbourne, Australia
Pinned Repositories
Bio-STR-exSTRa
Prepare BAM/CRAM for exSTRa R package
bioinfotools
Documenting usage and experience with bioinformatic tools
cavalier
cavalier: Candidate Variant List Evaluation Report
exSTRa
Expanded STR algorithm for Illumina sequencing data
Genes4Epilepsy
A curated list of monogenic epilepsy genes
isoRelate
Performs pairwise identity by descent analysis on haploid recombining organisms in the presence of multiclonal infections using SNP genotype data
moimix
R package for inferring multiple infections from high-throughput sequencing data
pf_variant_calling_pipeline
A bpipe pipeline for processing WGS from Plasmodium facliparum
RepeatExpansionDatabase
superSTR
A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.
The Walter and Eliza Hall Institute of Medical Research's Repositories
bahlolab/exSTRa
Expanded STR algorithm for Illumina sequencing data
bahlolab/superSTR
A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.
bahlolab/Genes4Epilepsy
A curated list of monogenic epilepsy genes
bahlolab/Bio-STR-exSTRa
Prepare BAM/CRAM for exSTRa R package
bahlolab/cavalier
cavalier: Candidate Variant List Evaluation Report
bahlolab/AmpSeqR
Multi-locus Sequence Type Identificatino from Multiplexed Amplicon Deep Sequencing
bahlolab/linkdatagen
bahlolab/mitoCN
Estimate mitochondrial DNA copy number from whole genome sequencing data
bahlolab/RepeatExpansionDatabase
bahlolab/ggwehi
Colour scales for ggplot2 based on the WEHI colour palette
bahlolab/PLASTER
Nextflow pipeline for long amplicon typing of PacBio SMRT sequencing data
bahlolab/retinalThicknessGWAS
Retinal Thickness phenotype cleaning and GWAS workflow
bahlolab/ADAR-RADAR
Nextflow pipeline for detection, annotation and analysis of RNA editing
bahlolab/docker-Bio-STR-exSTRa
Docker build for the Perl module Bio::STR::exSTRa
bahlolab/FoundHaplo
An R package to detect individuals with disease-causing variants by performing likelihood of Identity by descent between pairs of individuals from SNP genotyping array data
bahlolab/UKB.COVID19
UK Biobank COVID-19 data processing and risk factor association tests
bahlolab/EH5_kmerfilter
k-mer based filtering of ExpansionHunter 5 BAMs
bahlolab/amdrpd_viewer
data viewer for amd rpd cohort
bahlolab/bahlolab.github.io
bahlolab/exSTRaDevelopment
Expanded STR algorithm to detect repeat expansions in Illumina next-generation sequencing data
bahlolab/GEFS-PRS-manuscript
Code for statistical analyses and plots relevant to manuscript
bahlolab/GeneSetPheno
GeneSetPheno is a user-friendly graphical interface application designed to integrate, summarize, and visualize gene and variant-phenotype associations across gene sets.
bahlolab/Implementing-EraSOR-
Code for analyses performed as part of Ellis CA, Oliver KL et al. manuscript
bahlolab/linkdatagen-manual
LINKDATAGEN Manual in Quarto
bahlolab/mixSTR
Searching for read pairs containing mixed-motif STR expansions from complex repeat structures
bahlolab/nf-cavalier
Nextflow Pipeline for singleton and family based candidate variant prioritisation based on gene lists using the Cavalier R package. This pipeline is a work in progress.
bahlolab/PanRank
bahlolab/polycythaemiaVeraGWAS
bahlolab/seqr
web-based analysis tool for rare disease genomics
bahlolab/TBtypeR
Mycobacterium tuberculosis mixture detection and strain typing from WGS data