Details
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Type:
Bug
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Status: Closed (View Workflow)
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Resolution: Done
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Labels:
Description
Good afternoon!
I'm trying to vizualize a BAM-file from usegalaxy. I used Bowtie for mapping reads (75bp) with default settings and when I zoom it in IGB, I see some blue gaps in reads. Are they mismatches or not?
Thanks in advance!
Reporter: Evgeniy
E-mail: e.bakhmet@incras.ru
Attachments
Activity
From: Evgeniy <e.bakhmet@incras.ru>
Date: Mon, Apr 23, 2018 at 12:53 PM
Subject: Re: Mismatches or not?
To: Mason Meyer <mmeyer20@uncc.edu>
Hello, Mason!
I attached a screenshot with my request before. But now everything is okay. I checked it more carefully - when I zoom to base pairs and click "download sequence" (genome), some blue rectangles is appeared in reads instead of some base pairs, becouse length of base pairs of reads is more than lenght of base pairs in genome. But they aren't mismatches.
Best regards, Evgeniy
| Field | Original Value | New Value |
|---|---|---|
| Resolution | Done [ 10000 ] | |
| Status | Open [ 1 ] | Closed [ 6 ] |
| Workflow | Loraine Lab Workflow [ 17919 ] | Fall 2019 Workflow Update [ 20690 ] |
| Workflow | Fall 2019 Workflow Update [ 20690 ] | Revised Fall 2019 Workflow Update [ 22899 ] |
From: Mason Meyer <mmeyer20@uncc.edu>
Date: Mon, Apr 23, 2018 at 12:42 PM
Subject: Re: Mismatches or not?
To: e.bakhmet@incras.ru
Cc: Ann.Loraine@uncc.edu
Hello Evgeniy,
My name is Mason Meyer, Support Specialist for IGB. Thanks for contacting our team for assistance. I understand that you are seeing some blue gaps in the reads and are wondering if they are mismatches. I will spend some time looking into this so I can give you an accurate answer, but in the meantime, can you send a screenshot of what you are seeing so I can make sure we are seeing the same thing?
Thanks again,
Mason Meyer
IGB Support Specialist