Changes between Version 4 and Version 5 of PhenotypeAnnotationGuidelines


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Timestamp:
Jul 7, 2015, 3:42:39 PM (5 years ago)
Author:
mah79
Comment:

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  • PhenotypeAnnotationGuidelines

    v4 v5  
    44== FYPO ==
    55 * Basic [wiki:FissionYeastPhenotypeOntology documentation] on wiki
    6  * Use the [https://sourceforge.net/p/pombase/fission-yeast-phenotype/ FYPO SourceForge tracker] to request new terms
     6 * Use the [https://github.com/pombase/fypo/issues FYPO tracker at Github] to request new terms
    77
    88== Scope of phenotype curation ==
     
    4141  * The temperature at which the cells were grown. Currently split into 3 categories; low, medium and high.
    4242  * Sequential growth conditions, in which cells were subjected to a series of different conditions such as nitrogen starvation and recovery or heat shock and recovery.
    43  * Conditions live in a small in-house [http://pombase.svn.sourceforge.net/viewvc/pombase/phenotype_ontology/peco.obo ontology] in svn. Request new condition terms on the [https://sourceforge.net/p/pombase/fission-yeast-phenotype/ FYPO tracker].
     43 * Conditions live in a small in-house [https://github.com/pombase/fypo/blob/master/peco.obo ontology] in github. Request new condition terms on the [https://github.com/pombase/fypo/issues FYPO tracker].
    4444 * Also see the [wiki:PrePostComposePhenotype page on pre- vs. post-composed FYPO terms]
    4545
     
    7575
    7676=== FYPO annotation extension relations ===
    77 These are in an [https://sourceforge.net/p/pombase/code/HEAD/tree/phenotype_ontology/supplemental_files/fypo_extension_relations.obo OBO file in svn]. As of 2015-04-09:
     77These are in an [https://github.com/pombase/fypo/blob/master/supplemental_files/fypo_extension_relations.obo OBO file at github]. As of 2015-04-09:
    7878 * has_expressivity - see above
    7979 * has_penetrance - see above