Hugh Cross's repositories
genbanking
A collection of scripts to parse and store information from genbank files
microbiome_capture
For all scripts and workflows for whole genome capture of TB and other microbes
reference_database_creator_pypi
creating reference databases for amplicon sequencing
bioconda-recipes
Conda recipes for the bioconda channel.
cp_microsatellites
Detailed pipelines for research paper on NGS sequencing of chloroplast microsatellites
CSAMA
Course material for CSAMA: Statistical Data Analysis for Genome Scale Biology
cv
Source code for making a CV with Pagedown R package
DeDup
A merged read deduplication tool capable to perform merged read deduplication on single end data.
hugh.github.io
Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes
hughcross.github.io
github page
ipyrad
Interactive assembly and analysis of RAD-seq data sets
megahit
Ultra-fast and memory-efficient (meta-)genome assembler
metagenomics_summer_school
Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in December
NEON-Data-Skills
Self-paced tutorials that review key data literacy concepts and data analysis skills. Published materials can be found at:
passive_filtration_pipeline
The bioinformatic steps used to process sequence data for the Passive filtration paper
staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
sunbeam
A robust, extensible metagenomics pipeline