diff --git a/README.md b/README.md
index aabb05d320d8694e0f5d042bd6094ab465fa41f5..8c19cb8093d9a3b1aa48161c47c417a05718989b 100644
--- a/README.md
+++ b/README.md
@@ -7,15 +7,18 @@ This repository contains the supplementary code and intermediary data for the me
 
 The repository includes the following contents:
 
-1. **Code**:
-   - `metabarcoding_analysis.R`: R script for the metabarcoding data analysis, including data preprocessing, diversity analysis, and statistical testing.
-   - `metabarcoding_functions.R`: Custom functions used in the metabarcoding data analysis.
+1. **'analysis' folder**: contains scripts and intermediary files used and generated in the analysis.
+Analysis was largely conducted per primer used in metabarcoding and then synthesized in some higher level analyses.
+For each primer pair, the following is provided
+   - R script for the metabarcoding data analysis, including data preprocessing, diversity analysis, and statistical testing.
+   - Intermediary metabarcoding data, including amplicon sequence variants (ASVs), taxonomy, ASV counts for each sample and DADA2 processing logs.
+   - Metadata for the samples, including NDVI, and other relevant variables.
 
-2. **Data**:
-   - `raw_metabarcoding_data.csv`: Raw metabarcoding data, including OTU (Operational Taxonomic Unit) counts for each sample.
-   - `metadata.csv`: Metadata for the samples, including information such as field location, plant growth status, and other relevant variables.
+2. **'manuscript files' folder**: contains the larger tables presented in the manuscript
 
-3. **README.md**: This file, providing an overview of the repository and instructions for use.
+3. **'SRA submission' folder**: contains metadata used for submission of reads to NCBI's Short Read Archive
+
+4. **README.md**: This file, providing an overview of the repository and instructions for use.
 
 ## Usage
 
@@ -27,7 +30,7 @@ The repository includes the following contents:
 
 2. Ensure you have the necessary R packages installed. All necessary dependencies required by the analysis scripts are listed in the top chunks of the respective scripts.
 
-3. Obtain the raw read data from [ENA](LINK-MISSING)
+3. Obtain the raw read data from [SRA](https://www.ncbi.nlm.nih.gov/bioproject/) under the BioProject with the accession PRJNA1191665.
 
 4. Open the R Markdown file and run the code to reproduce the metabarcoding data analysis.
 
@@ -39,7 +42,7 @@ If you use the code or data from this repository in your own work, please cite t
 To be updated upon publication
 ```
 
-Additionally, please acknowledge the use of this supplementary repository by citing it as follows:
+Before publication, please acknowledge the use of this supplementary repository by citing it as follows:
 
 ```
 MP Tangvik et al. (2024). Supplementary code and data for 'Drone imagery and metabarcoding as diagnostic tools of poor growth in potato fields' [Data set]. GitLab. https://gitlab.nibio.no/simeon/persdatter-et-al-2025-metabarcoding