LoadGenome

The LoadGenome page lets you add your own genome for use with CoGe's various tools.

Important Information

• You must be logged into CoGe to use LoadGenome
• Your genome will be automatically assigned to your user account.
• You can share your genome with other CoGe users or the public (only you can see it by default)
• Please see CoGe's data policy

Quick Start

1. Select an organism for your genome
   1. If your organism does not exist, please create it
   2. If you create an organism please use the following formats:
      1. NAME: <Genus> <species> <subspecies> (<common name>)
         1. Example: Oryza sativa japonica (rice)
      2. DESCRIPTION: Please specify a full NCBI taxonomy for the organism description.
         1. Example: Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Liliopsida; commelinids; Poales; Poaceae; BEP clade; Ehrhartoideae; Oryzeae; Oryza
2. Version: what version is your genome (please use numbers)
   1. Example: 0.01
3. Type: What kind of sequence is it (most are unmasked)
4. Source: Where did you get your data?
   1. Give credit and provide a link to the source.
   2. Note: this could be you, your lab, your university, a sequencing center, your collaborator.
5. Restricted:
   1. If this is selected, only you have access to the data after it is loaded.
   2. If this is not selected, your data is fully public.
   3. Note: you can change this at any point (make it public, make it private, restrict who has access
6. Add data files: You can specify multiple fasta data files for your genome
   1. iPlant Data Store: Fast, fast, fast. Also you can get data files that are larger than 2GB
   2. FTP/HTTP: May be slow, but useful if the data is already posted somewhere.
      1. Note that HTTP usually doesn't work for files greater than 2GB
   3. NCBI: specify genbank accessions for a genome.
      1. Note: genomes retrieved from NCBI are made fully public
   4. Upload: upload from your computer.
      1. Note: Doesn't usually work for files larger than 2GB
7. Press "Load Genome" when everything is ready!