Details
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Type:
Task
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Status: To-Do (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:1
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Epic Link:
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Sprint:Fall 1
Description
Situation: Spoke with Matt Sergent (msergent@illumina.com) who is the local area rep for Charlotte. He said he is frequently on campus if we had questions. He mentioned that Illumina works differently in how they label each cell, and that they are not using UMI values. It's unclear if that means the BAM file will have the samtool tag for the cell barcode (CB/CR?).
I also asked if Illumina had example RNA-Seq data we could look at. He gave me one link (fluentbio) and Karthik found another.
https://www.fluentbio.com/species-mixture-experiment-with-large-cell-input/
https://help.ica.illumina.com/project/p-cohorts/cohorts-publicdata
Task: Find an example BAM file created using Illumina's single cell RNA-Seq pipeline and look to see if it has the CB/CR tags like the 10X genomics file.
Attachments
Issue Links
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Activity
| Field | Original Value | New Value |
|---|---|---|
| Epic Link | IGBF-3765 [ 22984 ] |
| Status | To-Do [ 10305 ] | In Progress [ 3 ] |
| Security | Hidden [ 10001 ] |
| Sprint | Fall 1 [ 202 ] |
| Status | In Progress [ 3 ] | To-Do [ 10305 ] |
| Sprint | Fall 1 [ 202 ] | Fall 1, Fall 2 [ 202, 203 ] |
| Rank | Ranked higher |
| Sprint | Fall 1, Fall 2 [ 202, 203 ] | Fall 1 [ 202 ] |