Sending genomes to the iPlant Data Store: Difference between revisions
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# Use [[OrganismView]] to find a genome | # Use [[OrganismView]] to find a genome | ||
# When found, click on the link [[GenomeInfo]] | # When found, click on the link [[GenomeInfo]] | ||
# [[File:Screen Shot 2014-10-01 at 9.36.00 AM.png|thumb|500px| | # [[File:Screen Shot 2014-10-01 at 9.36.00 AM.png|thumb|500px|center]] | ||
==Export genome to your iPlant Data Store== | ==Export genome to your iPlant Data Store== | ||
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# Click "Fasta Sequences" to export the genome's primary sequence | # Click "Fasta Sequences" to export the genome's primary sequence | ||
# Click "Export GFF" to export the GFF of the structural annotations | # Click "Export GFF" to export the GFF of the structural annotations | ||
# [[File:Screen Shot 2014-10-01 at 9.39.12 AM.png|thumb|500px| | # [[File:Screen Shot 2014-10-01 at 9.39.12 AM.png|thumb|500px|center]] | ||
# Data is exported to a special data in your iPlant Data Store called "coge_data". | # Data is exported to a special data in your iPlant Data Store called "coge_data". | ||
## Note: CoGe is restricted to only accessing this directory for security purposes. | ## Note: CoGe is restricted to only accessing this directory for security purposes. | ||
Revision as of 16:49, 1 October 2014
Intro
CoGe uses iPlant's Authentication and User Identity Management Services for validating users. If you are logged into CoGe, then CoGe can use iPlant's tools and services on your behalf such as retrieving data from and sending data to the iPlant Data Store. This tutorial will show you how to send a genome from CoGe to the iPlant Data Store. In this process, CoGe will add metadata about the genome (organism, original source of the data, etc.)
Log into CoGe
- Log into CoGe
- If needed: How to get a CoGe account
Find a genome of interest
- Use OrganismView to find a genome
- When found, click on the link GenomeInfo
Export genome to your iPlant Data Store
- To data, find "iPlant Data Store" under tools.
- Click "Fasta Sequences" to export the genome's primary sequence
- Click "Export GFF" to export the GFF of the structural annotations
- Data is exported to a special data in your iPlant Data Store called "coge_data".
- Note: CoGe is restricted to only accessing this directory for security purposes.
Find your genome in the iPlant Data Store
- Your genome will be exported to the "coge_data" directory in your iPlant Data Store
- CoGe will automatically add all its metadata to the genome
