Difference between revisions of "How to load genomes into CoGe"

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You can load your own genome sequence, annotation, and quantitative data for use with CoGe's tools.  These data may be kept private and shared with collaborators, or made fully public.
 
You can load your own genome sequence, annotation, and quantitative data for use with CoGe's tools.  These data may be kept private and shared with collaborators, or made fully public.
  
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#Log into CoGe  
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#Register for a CyVerse user account if you don't have one:  https://user.cyverse.org
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#Go to your [[User|User Profile Page]] by clicking My Profile in the menu bar. [[Image:Screen Shot 2013-04-02 at 11.49.01 AM.png|none]]  
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## Add CoGe as a CyVerse Service:
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#Your profile page will look something like: [[File:Screen Shot 2013-04-05 at 9.21.12 AM.png|none|CoGe's [[My Profile Page]] ]]
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## [[File:Screen Shot 2017-08-14 at 3.41.40 PM.png|400px]]
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#Click '''Create''' -> '''Load Genome''' [[Image:Screen Shot 2013-02-10 at 8.59.49 AM.png|none]]
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#Log into CoGe:  https://genomevolution.org
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## [[File:Screen Shot 2020-05-28 at 8.52.36 AM.png|400px]]
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#Go to your [[User|User Profile Page]] by clicking My Data in the menu bar.
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## [[File:Screen Shot 2020-05-28 at 8.54.09 AM.png|400px]]  
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#Click '''New''' -> '''New Genome'''  
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##[[File:Screen Shot 2020-05-28 at 8.54.30 AM.png|400px]]
 
# Follow [[LoadGenome|this link]] for information on how to use [[LoadGenome]].  
 
# Follow [[LoadGenome|this link]] for information on how to use [[LoadGenome]].  
 
## Once your genome is loaded into the system, you can add annotation and quantitative data to it using the [[LoadAnnotation]] and [[LoadExperiment]] features.
 
## Once your genome is loaded into the system, you can add annotation and quantitative data to it using the [[LoadAnnotation]] and [[LoadExperiment]] features.
 
#'''Note:''' Make sure your GFF file is in the correct format for CoGe: [[GFF ingestion]]
 
#'''Note:''' Make sure your GFF file is in the correct format for CoGe: [[GFF ingestion]]
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#If you get an error when accessing the CyVerse Data Store, make sure that CoGe has been added as a service to your CyVerse account:  https://user.cyverse.org
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## [[File:Screen Shot 2017-08-14 at 3.41.40 PM.png|400px]]

Latest revision as of 09:38, 28 May 2020

You can load your own genome sequence, annotation, and quantitative data for use with CoGe's tools. These data may be kept private and shared with collaborators, or made fully public.

  1. Register for a CyVerse user account if you don't have one: https://user.cyverse.org
    1. Add CoGe as a CyVerse Service:
    2. Screen Shot 2017-08-14 at 3.41.40 PM.png
  2. Log into CoGe: https://genomevolution.org
    1. Screen Shot 2020-05-28 at 8.52.36 AM.png
  3. Go to your User Profile Page by clicking My Data in the menu bar.
    1. Screen Shot 2020-05-28 at 8.54.09 AM.png
  4. Click New -> New Genome
    1. Screen Shot 2020-05-28 at 8.54.30 AM.png
  5. Follow this link for information on how to use LoadGenome.
    1. Once your genome is loaded into the system, you can add annotation and quantitative data to it using the LoadAnnotation and LoadExperiment features.
  6. Note: Make sure your GFF file is in the correct format for CoGe: GFF ingestion
  7. If you get an error when accessing the CyVerse Data Store, make sure that CoGe has been added as a service to your CyVerse account: https://user.cyverse.org
    1. Screen Shot 2017-08-14 at 3.41.40 PM.png
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