Difference between revisions of "Knowledgebase Reports"
From phenoscape
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** [http://kb-staging.phenoscape.org/OBD-WS/report/count/taxa/annotated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0000434%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D skeletal system and parts only] | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/taxa/annotated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0000434%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D skeletal system and parts only] | ||
** [http://kb-staging.phenoscape.org/OBD-WS/report/count/taxa/annotated?query=%7B%22taxon%22%3A%5B%7B%22id%22%3A%22TTO%3A253%22%7D%5D%7D Ostarioclupeomorpha only] THIS QUERY HAS A BUG - IT IS BEING INVESTIGATED!!! | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/taxa/annotated?query=%7B%22taxon%22%3A%5B%7B%22id%22%3A%22TTO%3A253%22%7D%5D%7D Ostarioclupeomorpha only] THIS QUERY HAS A BUG - IT IS BEING INVESTIGATED!!! | ||
| − | |||
* [http://kb-staging.phenoscape.org/OBD-WS/report/count/phenotypes/curated Count of EQ statements curated (state to phenotype links)] | * [http://kb-staging.phenoscape.org/OBD-WS/report/count/phenotypes/curated Count of EQ statements curated (state to phenotype links)] | ||
* [http://kb-staging.phenoscape.org/OBD-WS/report/count/phenotypes/annotated Count of distinct phenotypes used in taxon annotations] | * [http://kb-staging.phenoscape.org/OBD-WS/report/count/phenotypes/annotated Count of distinct phenotypes used in taxon annotations] | ||
| Line 85: | Line 84: | ||
** [http://kb-staging.phenoscape.org/OBD-WS/report/count/phenotypes/annotated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0001161%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D pectoral fin and parts only] | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/phenotypes/annotated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0001161%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D pectoral fin and parts only] | ||
** [http://kb-staging.phenoscape.org/OBD-WS/report/count/phenotypes/annotated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0000434%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D skeletal system and parts only] | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/phenotypes/annotated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0000434%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D skeletal system and parts only] | ||
| + | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/phenotypes/annotated?query=%7B%22taxon%22%3A%5B%7B%22id%22%3A%22TTO%3A253%22%7D%5D%7D Ostarioclupeomorpha only] | ||
* [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/curated Count of curated phenotype assertions (taxon-phenotype annotations)] | * [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/curated Count of curated phenotype assertions (taxon-phenotype annotations)] | ||
** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/curated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0001184%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D pelvic fin and parts only] | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/curated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0001184%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D pelvic fin and parts only] | ||
** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/curated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0001161%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D pectoral fin and parts only] | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/curated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0001161%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D pectoral fin and parts only] | ||
** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/curated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0000434%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D skeletal system and parts only] | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/curated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0000434%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D skeletal system and parts only] | ||
| + | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/curated?query=%7B%22taxon%22%3A%5B%7B%22id%22%3A%22TTO%3A253%22%7D%5D%7D Ostarioclupeomorpha only] | ||
* [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/distinct Count of distinct phenotype assertions (taxon-phenotype annotations)] | * [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/distinct Count of distinct phenotype assertions (taxon-phenotype annotations)] | ||
** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/distinct?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0001184%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D pelvic fin and parts only] | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/distinct?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0001184%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D pelvic fin and parts only] | ||
** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/distinct?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0001161%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D pectoral fin and parts only] | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/distinct?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0001161%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D pectoral fin and parts only] | ||
** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/distinct?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0000434%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D skeletal system and parts only] | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/distinct?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0000434%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D skeletal system and parts only] | ||
| + | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/annotations/taxa/distinct?query=%7B%22taxon%22%3A%5B%7B%22id%22%3A%22TTO%3A253%22%7D%5D%7D Ostarioclupeomorpha only] | ||
* [http://kb-staging.phenoscape.org/OBD-WS/report/count/genes/annotated Count of annotated genes] | * [http://kb-staging.phenoscape.org/OBD-WS/report/count/genes/annotated Count of annotated genes] | ||
** [http://kb-staging.phenoscape.org/OBD-WS/report/count/genes/annotated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0001184%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D pelvic fin and parts only] | ** [http://kb-staging.phenoscape.org/OBD-WS/report/count/genes/annotated?query=%7B%22phenotype%22%3A%5B%7B%22entity%22%3A%7B%22id%22%3A%22TAO%3A0001184%22%2C%22including_parts%22%3A%20true%7D%7D%5D%7D pelvic fin and parts only] | ||
Revision as of 20:24, 28 March 2011
ALL of the files (unvetted annotations from Sandrine) are not loaded on any instance
Reports on production Phenoscape KB
This contains consistency-checked and author-checked files (from 'phenex-files'). It is updated irregularly (every 1-3 months). This contains all of the data files found here. It contains the latest public versions of all ontologies at the time the data were loaded, with the exception of PATO (it currently contains an experimental PATO revision), and TAO (it contains an experimental TAO incorporating the new VAO - this will be removed at the next update of this system).
- Date on which these data were loaded
- Count of annotated publications, by higher level taxon
- Count of all published characters
- Count of all annotated characters
- Count of all published character states
- Count of all annotated character states
- Count of publication taxa (OTUs) across all publications
- Count of annotated taxa (valid taxa, i.e. terms in TTO)
- Count of EQ statements curated (state to phenotype links)
- Count of distinct phenotypes used in taxon annotations
- Count of curated phenotype assertions (taxon-phenotype annotations)
- Count of distinct phenotype assertions (taxon-phenotype annotations)
- Count of annotated genes
- Count of genotype-phenotype assertions (including morpholinos as genotypes)
- Count of distinct gene-phenotype assertions (implied by genotype/morpholino assertions)
- Count of distinct phenotypes used in gene annotations
Reports on kb-staging
This contains consistency-checked and author-checked files (from 'phenex-files'). It is updated irregularly (every 1-3 months). This contains all of the data files found here. It contains the latest public versions of all ontologies at the time the data were loaded, with the exception of PATO (it currently contains an experimental PATO revision).
- Date on which these data were loaded
- Count of annotated publications, by higher level taxon
- Count of all published characters
- Count of all annotated characters
- Count of all published character states
- Count of all annotated character states
- Count of publication taxa (OTUs) across all publications
- Count of annotated taxa (valid taxa, i.e. terms in TTO)
- pelvic fin and parts only
- pectoral fin and parts only
- skeletal system and parts only
- Ostarioclupeomorpha only THIS QUERY HAS A BUG - IT IS BEING INVESTIGATED!!!
- Count of EQ statements curated (state to phenotype links)
- Count of distinct phenotypes used in taxon annotations
- Count of curated phenotype assertions (taxon-phenotype annotations)
- Count of distinct phenotype assertions (taxon-phenotype annotations)
- Count of annotated genes
- Count of genotype-phenotype assertions (including morpholinos as genotypes)
- Count of distinct gene-phenotype assertions (implied by genotype/morpholino assertions)
- Count of distinct phenotypes used in gene annotations
Reports on kb-dev
This database is used for active development and may often be broken. It should usually not be relied upon for everyday use. This contains all of the data files found here. It contains the latest public versions of all ontologies at the time the data were loaded, with the exception of PATO (it currently contains an experimental PATO revision). It will have the tao with the vao ('new tao') for testing.
- Date on which these data were loaded
- Count of annotated publications, by higher level taxon
- Count of all published characters
- Count of all annotated characters
- Count of all published character states
- Count of all annotated character states
- Count of publication taxa (OTUs) across all publications
- Count of annotated taxa (valid taxa, i.e. terms in TTO)
- Count of EQ statements curated (state to phenotype links)
- Count of distinct phenotypes used in taxon annotations
- Count of curated phenotype assertions (taxon-phenotype annotations)
- Count of distinct phenotype assertions (taxon-phenotype annotations)
- Count of annotated genes
- Count of genotype-phenotype assertions (including morpholinos as genotypes)
- Count of distinct gene-phenotype assertions (implied by genotype/morpholino assertions)
- Count of distinct phenotypes used in gene annotations
kb-old
This database has the old interface - its data are frozen as of May 2010.
