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Tools Schema

Tools Schema

Jun 20, 2019

Some of these fields have Synapse annotations defined: https://github.com/Sage-Bionetworks/synapseAnnotations/blob/master/synapseAnnotations/data/tool.json

Field Name

Description

Synonyms

Column Type

Facet (Y/N)

Required (Y/N)

Destination

Notes

Applies to Which Tool Type

Field Name

Description

Synonyms

Column Type

Facet (Y/N)

Required (Y/N)

Destination

Notes

Applies to Which Tool Type

toolName



name, methodName

string

N

Y

link

name is a clickable link, URL sourced from "link" column

computational, experimental, clinical

description



summary

large text

N

Y





computational, experimental, clinical

link

link to access the tool

link

URL

N

Y





computational, experimental, clinical

consortium

Key for mapping

organization, program, fundingAgency

string

Y

N





computational, experimental, clinical

grant

Key for mapping

project

string

Y

N





computational, experimental, clinical

study

Key for mapping



string

Y

N





computational, experimental, clinical

contributor

contributor name

contact

string

N

N





computational, experimental, clinical

contributorContact

synID or email address



entity? email?

N

N





computational, experimental, clinical

toolType

e.g. bench science/experimental, computational, or clinical



string

Y

N



also associated with different icons?

computational, experimental, clinical

subType

mouse model, cell line, R shiny tool, etc



string

Y

N



***is this needed?



reagentType

mouse model, cell line, viral vector



string

Y

N





experimental

softwareType

type of Software, e.g. script, packageLibrary, container, graphical user interface, web user interface, web application



string

Y

N





computational

softwareLanguage

software language e.g. R, python, matlab



string

Y

N





computational

inputDataType

source data for tool e.g. geneExpression, proteomics



string

Y

N





computational

outputDataType

output data of tool e.g. genomicVariants, image, proteomics



string

Y

N





computational

diagnosis

e.g. Late onset AD, Familial AD

tumor type

string

Y

N





computational, experimental, clinical

modelType

e.g. APP mouse model, Trem2 model



string

Y

N





experimental

outputDatasets

datasets generated using this tool or about this tool



entity

N

N



is this data using the tool or about the tool? ie rnaseq data from a workflow tool vs rnaseq data ON a mouse model

computational, experimental, clinical

publications

list of publications?



large text

N

N



what is the expected display and behavior?

computational, experimental, clinical

controlledAccess





boolean

N

N





computational, experimental, clinical

documentation

link to wiki or PDF containing documentation, possibly in Synapse



URL

N

N





computational, experimental, clinical

featured





boolean

N

N





computational, experimental, clinical