Optimised DNA isolation from marine sponges for natural sampler DNA (nsDNA) metabarcoding

Data repository accompanying the paper 'Optimised DNA isolation from marine sponges for natural sampler DNA (nsDNA) metabarcoding' by Harper et al. (2022).

1_Raw_Data.zip

This zipped folder contains the Jupyter notebook and sample_accessions.tsv file required to download raw illumina data from the NCBI Sequence Read Archive:

• BioProject: PRJNA854174
• BioSample accessions: SAMN29421799 - SAMN29421894 (Phase 1) and SAMN29444657 - SAMN29444784 (Phase 2)
• SRA accessions: SRR19906974 - SRR19907069 (Phase 1) and SRR19912485 - SRR19912613 (Phase 2)

2_Reference_Databases.zip
This zipped folder contains scripts used to generate curated reference databases used for taxonomic assignment in GenBank/fasta format.

3_Tapirs.zip
This zipped folder contains the scripts and files needed to perform bioinformatic processing with Tapirs. In order to make use of scripts, you will have to install Tapirs and its dependencies. Please see the Tapirs GitHub repository for instructions on how to do this.

4_Data_Analysis.zip

This zipped folder contains all scripts and metadata required to produce figures and statistically analyse data in R.

Please contact Dr Lynsey Harper (lynsey.harper2@gmail.com) if you encounter any issues!