Processed data

                                     Access processed data search facility


The ‘omics date produced through the Australian Microbiome initiative is automatically processed every month and the secondary processed data available to member of the consortium through a dedicated search facility page.

Processed data available:

  • zOTU abundance tables for each amplicon and site specific metadata
  • metagenomics gene map (in development)

Search facility documentation:

1] Filters

Apply filters to reduce to your dataset of interest. Filters of the different categories can be combined. Filters available:

  • Amplicon type
    • All
    • Bacteria / 16SrRNA (27f / 591r) 
    • Archaea / 16SrRNA (A2f / 519r)
    • Fungi / ITS1 (ITS1F / ITS4) - Soil only
    • Eukaryota / 18SrRNA (1391f / EukBr) - Soil only
    • Eukaryota / 18SrRNA (18Sv4F / 18Sv4R) – Marine only
  • Taxonomy (hierarchical, taxonomic selection auto-populate lower taxonomic search terms)
  • Contextual
    • Environment (all; marine; soil)
    • Additional search filters through range or text selection. Single or multiple filters can be applied with the option of matching “all” (every filter need to be true) or “any” (either filter need to be true)
      • Contextual metadata category (e.g. date sampled; depth; chlorophyll a)
      • Sample ID (single or range selection)
      • Sample type (all; coastal water; coral; pelagic; seaweed; sediment; soil; sponge)

Taxonomy search example:

  • Search needs: bacteria, classified at phylum level
  • Selection:
    • amplicon = 27f519r_bacteria
    • domain = Bacteria
    • phylum ≠ unclassified
  • Result: 
    • 16S abundance table for all samples containing bacteria classified at the phylum level (removed samples: samples without classified bacterial phyla and all non-bacterial and non-classified phylum OTU)
    • the associated metadata for samples contained in the abundance table

2] Map

The “show results on map” will open a heatmap view of the samples filtered. The default initial view contains the full dataset.

Zoom in/out using the +/- buttons or by “right clicking” on the collection site. In case of multiple samples mapped a number will indicate how many sites are represented with a gradient colour (red for high numbers to green for low numbers). Sample ID and coordinates can be viewed for single sites by “right clicking” on the map site marker.

3] Export

The initial default page contains the full dataset. If no filters are selected, the “export search result” will initiate the download for the full Australian Microbiome analysed dataset.

If filters are applied, the export will download only the filtered resulting samples.