Download
vignette-download.RmdThis panel allows to download the processed data. The following files are provided. They can be linked by key fields. They only contain the selected datasets, sample type and taxa.
The asv_reads and phyloseq files can be very big if you download all datasets and all taxa.
| file | content | key fields |
|---|---|---|
| datasets.xlsx | Information on the different datasets selected including reference and GenBank id | dataset_id |
| samples.xlsx | List of samples selected with medadata | file_code |
| asv.xlsx | ASV selected with taxonomy and sequence | asv_code |
| asv_reads.tsv.gz | Percent of reads (normalized to total number of eukaryotic reads in the sample), for each ASV and each sample (long form). | asv_code, file_code |
| phyloseq.rds | File to use with phyloseq R package (https://joey711.github.io/phyloseq/). Use readRDS() function to read | 2000 samples max |
Fig. 1: Download page