notes: metap: added credentials for (raw) data access; updated readme for reprod. (issue #127)

README_REPROD.md

@@ -4,8 +4,20 @@ Notes for those trying to reproduce the results from the publication.
 
 # Setup
 
+## Data
+
+Processed sequencing data of the GDB sample is available under BioProject accession PRJNA723028 (Biosamples: metag_sr: SAMN18797629, metat_sr: SAMN18797630, and metag_lr: SAMN18797631).
+Metaproteomics data of the GDB sample is available at ProteomeXchange under accession PXD025505.
+The code used for the analysis is available at https://doi.org/10.6084/m9.figshare.14447553 and supplementary data of relevant results is available at https://doi.org/10.6084/m9.figshare.14447559.
+
+Note: For metaP data access, see also `notes/gdb_metap.md`.
+
+## Conda and snakemake
+
 Install `conda` and create the main `snakemake` environment (see `README.md`).
 
+## Other tools
+
 Clone `OPERA-MS` repository
 ```bash
 # in the code directory

notes/gdb_metap.md

+# Access for submitted metaP data
+
+Credentials required for data access as long as the submission is not public:
+
+**ProteomeXchange accession**: PXD025505
+**Username**: reviewer_pxd025505@ebi.ac.uk
+**Password**: tj66CIfK
+
+The submission includes the raw proteomic data, the spectra data and identifications files for each analyzed protein FASTA file.
+
+# Code
 Code used to generate metaP reports which are included in the report workflow.
 
 The reports were generated for