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2019-06-11_gbs_ee

Resource for Genotype-by-Sequencing in Ecology and Evolution workshop

2020-spring-school-gbs

akatore_kelp_epibiota

Comparative phylogeographic analysis of Durvillaea kelps and associated epibiota in Akatore, New Zealand

awesome-bioinformatics

A curated list of awesome Bioinformatics libraries and software.

bully_gbs

bully_rna

ciaran_revisions_galaxids

course_rna-seq2018

dadi_pipeline

An accessible and flexible tool for fitting demographic models with dadi using custom or published models (available here), conducting goodness of fit tests, and plotting.

dekupl-annotation

Annotate DE contigs identified by DE-kupl.

digitallab2017

This folder contains the introductory material for the introduction to PhD days 2017

easysfs

Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style SFS for demographic analysis

eelrna

fastqc

FastQC from http://www.bioinformatics.babraham.ac.uk/projects/fastqc/

galaxias_introgression

gbs_snp_filter

filtering SNPs based on LD and HWE status

genetic_trade_offs_simulations

This repository contains the code necessary to replicate the simulations in Connallon et al. : Predicting the prevalence of genetic trade-offs among adaptive substitutions

hacky_hour_data_management

hisat2

Graph-based alignment (Hierarchical Graph FM index)

huttoni_pilot

instructor-training

The Carpentries (Software, Data, and Library Carpentry) instructor training course material

korero_gbs

ldutoit

lemurs_contactzone_grimur

RADseq project on the contact zone between Microcebus murinus & M. griseorufus in the Andohahela area.

long-read-assembly

Long-read assembly workshop OBSS

male_female_fst

maurea_micrelenchus_phylo

metabarcoding_rvisuals

This script contains the R visualisations presented in the metabarcoding workshop ran by Hugh Cross in Otago October 4, 2018

metagenomics_summer_school

Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in December

my_msc_project

this is a toy example for hacky hour