Leah Kemp's Projects
Analysis documentation for research into human adipose nanopore methylation. Oxford Nanopore Technologies (ONT), human, adipose, germline, adaptive sampling data.
Pipelines for assembling NGS data from Seattle flu study.
Recipes for containerised software.
A review of the current pipelines/tools available for analysing DNA/RNA data.
Documentation for various ESR projects.
An initial place to collate projects associated with the Human Genomics group at ESR
A bit of starter code to help a colleague get started wrangling and extracting summary statistics from a road crash dataset in R.
Analysis documentation for part of the reference genome assembly of the humble guinea pig. Oxford Nanopore Technologies (ONT) pore-c data.
Minimal tests for the amount of compute resources required for analysing human genomics datasets at ESR.
Analysis documentation for research into the variants associated with hyperparathyroidism. Illumina, germline, human, whole exome sequence (WES) data from the CCDHB.
A simple singularity recipe for Madeline 2.0 Pedigree Drawing Engine.
Benchmarking parabricks on NVIDIA A100's on NeSi.
A generic best practice workflow for processing human Oxford Nanopore Technologies (ONT) sequencing data.
Adipose nanopore methylation project.
Nextflow pipeline to align, variant call (SNP's, indels's, SV's) and phase long read ONT and/or pacbio HiFi data
Wrapper scripts to automate some aspects of running human_genomics_pipeline and vcf_annotation_pipeline.
Snakemake workshop for RezBaz2020.
Analysis template for analysing Illumina RNAseq data.
Trying to help a colleague get a 16s-rRNA-Sanger snakemake pipeline working.
Small non-coding RNA analysis template for analysing Illumina small RNAseq data.
A place for talks, blurbs, bios etc related to work at ESR.
A collection of tasty script nibs I like and don't want to loose
Testing structural variant (SV) callers for illumina germline whole genome sequence (WGS) data (human).
Helping a colleague reviewing/testing the seattleflu/assembly pipeline.
Plotting my training data because I'm a nerd and a jock.
An R Shiny app that presents a few key results of my MSc thesis.
Files used to compile my MSc thesis.
Files used to compile a gitbook version of my MSc thesis.