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Objective
Develop a web app to extract data from GDM, preprocess it, and generate a Flapjack project file that will be used in a Flapjack application for pedigree verification.
Success metrics
Goal | Metric |
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web page that connects to GDM through BrAPI | |
Allow users to extract studies (experiment + dataset) |
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Filter dataset by call rates |
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perform consensus calling |
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split dataset into populations based on a selected criteria |
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generate and download Flapjack project file |
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Requirements
# | Requirement | User Story | Importance | Jira Issue | Notes |
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1 | PedVer: Web-based Application
GDM-462
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Getting issue details...
STATUS
| As a GDM user, I want a webpage that connects to GDM through BrAPI Provide BrAPI links and login credentials for GDM (UI has a dropdown to choose a Study) | HIGH |
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2 | PedVer: Extract Studies
GDM-463
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Getting issue details...
STATUS
| As a GDM user, I want to extract Studies (experiment + Dataset) preview of the data + information on the Study include a property response for dnarun which should have all the germplasm and dnasample metadata and their properties associated with the list of dnaruns provided include a property response field for variants which should have all the marker metadata and their properties |
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3 | PedVer: Filter
GDM-464
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Getting issue details...
STATUS
| As a GDM user, I want to be able to filter data by call rates, either sample call rate or marker call rate |
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4 | PedVer: Consensus
GDM-465
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Getting issue details...
STATUS
| As a GDM user, I want to perform consensus calling |
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5 | PedVer: Split Data
GDM-466
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Getting issue details...
STATUS
| As a GDM user, I want to be albe to split datasets into populations based on selected criteria |
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6 | PedVer: Extract FJ Project File
GDM-467
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Getting issue details...
STATUS
| As a GDM user, I want to generate and download a flapjack project file |
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User interaction and design
Open Questions
Question | Answer | Date Answered |
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Out of Scope