Details
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Type:
Task
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Status: Closed (View Workflow)
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Priority:
Minor
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Resolution: Done
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Affects Version/s: None
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Fix Version/s: None
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Labels:None
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Story Points:0.5
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Epic Link:
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Sprint:Summer 5
Description
BREW3R (https://github.com/lldelisle/BREW3R.r) is a tool designed to extend gene annotations using publicly available data, addressing cases where gene annotations appear truncated relative to coverage graphs in IGB. This integration aims to enhance the accuracy of gene models in IGB by updating reference annotations with longer UTRs or additional exons where appropriate.
Conduct initial evaluation to assess the feasibility and benefits of integrating BREW3R into IGB. Also, please identify similar tools with the same functionality that we might be able to implement instead, especially those on platforms other than R.
Attachments
Activity
| Field | Original Value | New Value |
|---|---|---|
| Epic Link | IGBF-1765 [ 17855 ] |
| Story Points | 0.5 |
| Description |
BREW3R (https://github.com/lldelisle/BREW3R.r) is a tool designed to extend gene annotations using publicly available data, addressing cases where gene annotations appear truncated relative to coverage graphs in IGB. This integration aims to enhance the accuracy of gene models in IGB by updating reference annotations with longer UTRs or additional exons where appropriate.
Conduct initial evaluation to assess the feasibility and benefits of integrating BREW3R into IGB. |
BREW3R (https://github.com/lldelisle/BREW3R.r) is a tool designed to extend gene annotations using publicly available data, addressing cases where gene annotations appear truncated relative to coverage graphs in IGB. This integration aims to enhance the accuracy of gene models in IGB by updating reference annotations with longer UTRs or additional exons where appropriate.
Conduct initial evaluation to assess the feasibility and benefits of integrating BREW3R into IGB. Also, please identify similar tools with the same functionality that we might be able to implement instead, especially those on platforms other than R. |
| Summary | Investigate BREW3R Tool into IGB for Extending Gene Annotations | Investigate BREW3R tool for extending gene annotations using RNA-Seq data |
| Assignee | Dylan Marrotte [ dmarrott ] | Ann Loraine [ aloraine ] |
| Assignee | Ann Loraine [ aloraine ] |
| Assignee | Dylan Marrotte [ dmarrott ] |
| Assignee | Dylan Marrotte [ dmarrott ] | Paige Kulzer [ pkulzer ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | Ready for Pull Request [ 10304 ] |
| Status | Ready for Pull Request [ 10304 ] | Pull Request Submitted [ 10101 ] |
| Status | Pull Request Submitted [ 10101 ] | Reviewing Pull Request [ 10303 ] |
| Status | Reviewing Pull Request [ 10303 ] | Merged Needs Testing [ 10002 ] |
| Status | Merged Needs Testing [ 10002 ] | Post-merge Testing In Progress [ 10003 ] |
| Resolution | Done [ 10000 ] | |
| Status | Post-merge Testing In Progress [ 10003 ] | Closed [ 6 ] |