Details
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Type:
Task
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Status: Closed (View Workflow)
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Priority:
Major
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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:1
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Epic Link:
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Sprint:Spring 4 2023 Feb 21, Spring 5 2023 Mar 6
Description
We have a new dataset from the Muday lab with experimental conditions similar to the first one we processed. However, a lot of the code in the repository is written as though there will only ever be one dataset. This is very confusing.
I will reorganize the repo and file names to make the repository easier to understand.
Repository:
Attachments
Activity
| Field | Original Value | New Value |
|---|---|---|
| Epic Link | IGBF-2993 [ 21429 ] |
Adding code to write a new version of counts file containing gene descriptions and renaming columns to match sample codes in https://bitbucket.org/hotpollen/flavonoid-rnaseq/src/main/ExternalDataSets/muday-144_sample_sheet.xlsx.
Re-org complete, for now. Moving to "needs first level review".
[~molly] : please take a look and let me know if everything makes sense or if you have any questions.
All changes are merged into the main branch.
Please note:
There is a new "counts" file made from the original "salmon" file with two big changes:
- it has gene descriptions from SL5
- it uses sample codes as column headings
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Status | In Progress [ 3 ] | Needs 1st Level Review [ 10005 ] |
| Assignee | Ann Loraine [ aloraine ] |
| Description |
We have a new dataset from the Muday lab with experimental conditions similar to the first one we processed. However, a lot of the code in the repository is written as though there will only ever be one dataset. This is very confusing.
I will reorganize the repo and file names to make the repository easier to understand. |
We have a new dataset from the Muday lab with experimental conditions similar to the first one we processed. However, a lot of the code in the repository is written as though there will only ever be one dataset. This is very confusing.
I will reorganize the repo and file names to make the repository easier to understand. Repository: * https://bitbucket.org/hotpollen/flavonoid-rnaseq/src/main/ |
| Sprint | Spring 4 2023 Feb 21 [ 164 ] | Spring 4 2023 Feb 21, Spring 5 2023 Mar 6 [ 164, 165 ] |
| Rank | Ranked higher |
[~molly] and I reviewed the new structure. Moving to Done.
| 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 ] |
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