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MicroB3-IS / osd-analysis

Repository for all Ocean Sampling Day related source code with information on how-to acquire OSD data
Apache License 2.0
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Biological File Identifiers in Environmental Metadata #26

Closed yavorska closed 9 years ago

yavorska commented 9 years ago

Hi All,

I've been going through the updated environmental metadata files and have come across a problem regarding the biological data identifiers.

Previously the biological files were referenced by names such as ERR---, however the current files have ERS--- and SAMEA32--- columns without the ERR--- identifier (which is needed for sample identification). I can match them all one by one through the EBI site, http://www.ebi.ac.uk/ena/data/view/ERS667665, however this will take a long time and I'm sure there should be a faster way to get the mappings.

Has anyone gone through these mappings themselves already or can anyone point me in the direction of a file where I could find them?

Cheers! Olena

genomewalker commented 9 years ago

Hi Olena, you can find the mapping file between the runs (ERR*) and the OSD labels in this file

We will update the github wiki ASAP.

Cheers! Antonio

yavorska commented 9 years ago

Fantastic, thank you!

renzok commented 9 years ago

and docuemnted here for all https://github.com/MicroB3-IS/osd-analysis/wiki/Guide-to-OSD-2014-data#mapping-between-osd-metadata-and-ena-runs