Details
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Type:
Task
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Status: Needs 1st Level Review (View Workflow)
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Priority:
Major
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Resolution: Unresolved
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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:2
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Epic Link:
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Sprint:Fall 3, Fall 4
Description
Situation: There is a new version of the human genome referred to as either telomere to telomere or T2T or HS1. UCSC does provide this genome, link, and IGB is pulling in the genome through the UCSC REST API. As part of IGBF-3902, IGB is now including the hs1 genome under the "Homo sapiens" Species dropdown, but a Quickload for this genome still needs to be made.
Tasks: Create a bed14 annotation file for this new genome, and add it and the 2bit file (link) to IGB Quickload.
Attachments
Issue Links
Activity
| Field | Original Value | New Value |
|---|---|---|
| Epic Link | IGBF-1765 [ 17855 ] |
| Summary | Add Telomere to Telomere human genome to IGB | Create Telomere to Telomere human genome Quickload |
| Description |
Situation: There is a new version of the human genome referred to as either telomere to telomere or T2T or HS1. UCSC does provide this genome, [link|https://genome.ucsc.edu/cgi-bin/hgGateway?db=hs1], and IGB is pulling in the genome through the UCSC REST API. However, IGB is not including the hs1 genome under the "Homo sapiens" Species dropdown, and is instead labeling it as "hs". The annotations for this genome version are also somewhat limited.
Tasks: Modify IGB (synonyms.txt maybe?) such that the "hs1" genome appears under Homo sapiens. Create a bed14 annotation file for this new genome, and add it and the 2bit file ([link|https://hgdownload.soe.ucsc.edu/downloads.html#human]) to IGB Quickload. |
Situation: There is a new version of the human genome referred to as either telomere to telomere or T2T or HS1. UCSC does provide this genome, [link|https://genome.ucsc.edu/cgi-bin/hgGateway?db=hs1], and IGB is pulling in the genome through the UCSC REST API. As part of Tasks: Create a bed14 annotation file for this new genome, and add it and the 2bit file ([link|https://hgdownload.soe.ucsc.edu/downloads.html#human]) to IGB Quickload. |
| Assignee | Paige Kulzer [ pkulzer ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Assignee | Paige Kulzer [ pkulzer ] | Nowlan Freese [ nfreese ] |
| Status | Needs 1st Level Review [ 10005 ] | First Level Review in Progress [ 10301 ] |
| Status | First Level Review in Progress [ 10301 ] | Needs 1st Level Review [ 10005 ] |
| Sprint | Fall 2 [ 203 ] | Fall 3 [ 204 ] |
| Sprint | Fall 3 [ 204 ] | Fall 3, Fall 4 [ 204, 205 ] |
| Rank | Ranked higher |