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Sequences files downloaded from ENA in a standard format. These are the two fastq files to use as input for running PEMA in the ARMS Internal Joint Initiative workflow (Step 5.2). The two files are provided by ENA (European Nucleotide Archive: https://www.ebi.ac.uk/ena) in the framework of the ARMS collection of sequences.
It is a fasta file produced when PEMA is run on gene 18S, gene ITS and COI sequences.
It is the output file of the optional step 5.3 "Bold Retriever" and the input file of "ARMS OTU Unifier" (step 6) of the ARMS workflow of the Internal Joint Initiative.
It represents the filtered ARMS collection file uploaded from the local PC of the researcher or gathered online from the IMIS database. It contains only with the rows/info of the genes selected by the user in the Step 3 of the ARMS workflow of the Internal Joint Initiative (see here the full MasterARTMS.csv: https://metadatacatalogue.lifewatch.eu/srv/eng/catalog.search#/metadata/e6289cf6-dde7-4584-89e6-bd7e907a4b5f).
It represents the filtered ARMS collection file uploaded from the local PC of the researcher or gathered online from the IMIS database after that the user indicates which columns contain the specific data to process. It is the output file of the "ARMS Choose and Parameterize" service (step 4) and the input of the "PEMA Sequences Retriever" (step 5.1) of the ARMS Workflow within the Internal Joint Initiative.
ARMS 2018 dataset on long-term monitoring and biodiversity assessment of invasive and indigenous hard-bottom communities
The ARMS-MBON (Marine Biodiversity Observation network for genetic monitoring of hard-bottom communities) European project is a Genomics Observatory and a collaboration of ~25 European institutes who deploy individual settlement units in the vicinity of marine stations and Long-term Ecological Research sites in European coastal waters and Antarctica. After a few months they are brought up, and visual, photographic, and genetic assessments are made of the lifeforms that settled on them. These data will be used to assess the status of, and changes in, the hard-bottom communities of these near-coast environments. This project began collecting full scientific data in 2019. This dataset linked to this record contains the ARMS data of 2018. Note that this dataset is not yet complete and will undergo several updates. In the "MasterARMS" file you can find the data collected during the sampling, links to images of the ARMS plates, the run accession codes of the sequences in ENA, and access status (open or closed). The documentation you can download are the various SOPs. The "MasterARMS" file and documentation are open access, but some of the images and sequences are subject to a moratorium period.