This repo contains the data and scripts associated with the manuscript: Rivera, H.E., ..., Davies, S.W. (in review) Heat challenge elicits stronger physiological and gene expression responses than starvation in symbiotic Oculina arbuscula
The repository is separated into input files, scripts, figures, and tables folders.
The read_mapping_count_scripts folder contains all scripts that were used to:
- Quality filter and trim raw TagSeq RNA reads
- Map reads to the reference O. arbuscula and B. psygmophilum transcriptomes (see https://github.com/hrivera28/oculina_apo-sym_gene_expression)
- Count number of mapped reads for differential gene expression analyses
All other analyses used for the publication are in the Master_analyses_final.R script
All the input data that would be needed to run analyses is included in the input_files.Final figures and tables that are in the manuscript and supplementary data are included in the respective figures and tables folders for easy reference.