Singapore-metabarcodes

Script and processed data for :

• Chénard, C., Wijaya, W., Vaulot, D., Lopes dos Santos, A., Martin, P., Kaur, A. & Lauro, F.M. 2019. Spatial and temporal dynamics of microbial communities in equatorial coastal waters. Scientific Reports submitted

Directories

qiime-scripts

• monsoon_qiime_script.sh : Qiime script to process raw data and do some analyses
• manifest.csv: list of fastq files
• metadata.txt: sample list
• metadata_volatility.txt : data for volatilty analysis

R

• Metabarcoding_Singapore_phyloseq.Rmd : Script to produce phyloseq files and produce plots (HTML version of Rmd file)
• monsoonpaper_env_data.csv : environmental metadata
• Singapore_metadata.xlsx : list of samples and of stations with environmental data
• Singapore ASV_table.xlsx :
  • Sheet ASV finale: List of ASVs, taxonomic assignations, read number in each sample, and sequence
  • Sheet BLAST: Best BLAST for each eukaryotic ASV