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2brad_denovo

Genome-wide de novo genotyping with 2bRAD

2brad_gatk

Genome-wide reference-based genotyping with 2bRAD

adaptive-pathways-of-coral-populations-on-the-great-barrier-reef

processed data and scripts to accompany the same-title paper

afs-analysis-with-moments

Standalone python scripts to do pairwise AFS analysis for population differentiation using Moments (http://www.genetics.org/content/early/2017/05/08/genetics.117.200493)

annotatingtranscriptomes

Assembly and annotation of transcriptomes de novo

clonesandclades_ofav_keys

Scripts and datasets accompanying the paper by Manzello et al, "Role of host genetics and heat tolerant algal symbionts in sustaining populations of the endangered coral Orbicella faveolata in the Florida Keys with ocean warming"

coral_gbm_reciptrans

Gene body methylation in reciprocally transplanted Acropora millepora corals

coral_triangle_slim_model

Predicting coral survival in the Indo-West pacific under global warming

coraltriangle_slim_model

Scripts and datasets to accompany paper Matz, Treml & Haller, Global Change Biol. 2020

emapper_to_gomwu_kogmwu

A few awk one-liners to extract data tables compatible with GO_MWU and KOGMWU methods out of eggNOG-eMapper output

go_mwu

Rank-based Gene Ontology analysis of gene expression data

ldnetworks

Detection of polygenic selection based on long-range LD across genome.

linkagemapanchoring

Anchoring variants in genomic scaffolds to linkage map

mcmc.otu_walkthrough

mega-class

genomics class in FL Keys

misc

miscellaneous

multivariate_gwas

pipelines2020

popgenclass

rda-forest

association analysis of distance matrices using gradient forest approach

tag-based_rnaseq

Cost-efficient genome-wide gene expression profiling

tjarno2023

population genomics in R

yap_siblings

sweepstakes reproductive success in Yap corals