Details
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Type:
Bug
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Status: Closed (View Workflow)
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Priority:
Major
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Resolution: Fixed
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Labels:None
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Environment:
IGB 6.7 (trunk) but also affects 6.6
Description
As always, feel free to re-assign this as needed.
In the trunk version of IGB the Affy probe sets are not displayed correctly.
To repeat:
1. choose A_thaliana_Jun_2009
2. zoom in on a gene region
3. choose data set IGB (DAS2)>affy>ATH1-121501
note there probe sets data sets for mouse, human, etc
you don't have to use A thaliana
4. load data
What's happening is that the probe sets are somehow getting put into a different track.
What you should see is the attached, a screen capture from IGB 6.5.3, following setting the label field to "id."
(I am showing the id in the image so that you can more easily find this probe set again if you need to.)
Attachments
Issue Links
- relates to
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BUG-622 File format issues
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- Closed
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Activity
| Field | Original Value | New Value |
|---|---|---|
| Attachment | probeset-view-minus-strand.png [ 10395 ] |
| Description |
As always, feel free to re-assign this as needed. In the trunk version of IGB the Affy probe sets are not displayed correctly. To repeat: 1. choose A_thaliana_Jun_2009 2. zoom in on a gene region 3. choose data set NetAffx (DAS2)->affy->ATH1-121501 note there probe sets data sets for mouse, human, etc you don't have to use A thaliana 4. load data What's happening is that the probe sets are somehow getting put into a different track. What you should see is the attached, a screen capture from IGB 6.5.3, following setting the label field to "id." (I am showing the id in the image so that you can more easily find this probe set again if you need to.) |
As always, feel free to re-assign this as needed. In the trunk version of IGB the Affy probe sets are not displayed correctly. To repeat: 1. choose A_thaliana_Jun_2009 2. zoom in on a gene region 3. choose data set NetAffx (DAS2)->affy->ATH1-121501 note there probe sets data sets for mouse, human, etc you don't have to use A thaliana 4. load data What's happening is that the probe sets are somehow getting put into a different track. What you should see is the attached, a screen capture from IGB 6.5.3, following setting the label field to "id." (I am showing the id in the image so that you can more easily find this probe set again if you need to.) |
| Assignee | Hiral Vora [ hiralv ] | Alyssa Gulledge [ alyssa ] |
| Assignee | Alyssa Gulledge [ alyssa ] | Hiral Vora [ hiralv ] |
| Assignee | Hiral Vora [ hiralv ] | Alyssa Gulledge [ alyssa ] |
| Status | Open [ 1 ] | Resolved [ 5 ] |
| Assignee | Alyssa Gulledge [ alyssa ] | |
| Resolution | Fixed [ 1 ] |
| Status | Resolved [ 5 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Closed [ 6 ] | Reopened [ 4 ] |
| Assignee | Alyssa Gulledge [ alyssa ] |
| Attachment | export.png [ 10458 ] |
| Attachment | export.png [ 10458 ] |
| Attachment | export.png [ 10459 ] |
| Assignee | Alyssa Gulledge [ alyssa ] | Hiral Vora [ hiralv ] |
| Assignee | Hiral Vora [ hiralv ] | Alyssa Gulledge [ alyssa ] |
| Status | Reopened [ 4 ] | Resolved [ 5 ] |
| Assignee | Alyssa Gulledge [ alyssa ] | |
| Resolution | Fixed [ 1 ] |
| Status | Resolved [ 5 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Closed [ 6 ] | Reopened [ 4 ] |
| Assignee | Vineeth Mylapur [ smylapur ] |
| Assignee | Vineeth Mylapur [ smylapur ] | Alyssa Gulledge [ alyssa ] |
| Description |
As always, feel free to re-assign this as needed. In the trunk version of IGB the Affy probe sets are not displayed correctly. To repeat: 1. choose A_thaliana_Jun_2009 2. zoom in on a gene region 3. choose data set NetAffx (DAS2)->affy->ATH1-121501 note there probe sets data sets for mouse, human, etc you don't have to use A thaliana 4. load data What's happening is that the probe sets are somehow getting put into a different track. What you should see is the attached, a screen capture from IGB 6.5.3, following setting the label field to "id." (I am showing the id in the image so that you can more easily find this probe set again if you need to.) |
As always, feel free to re-assign this as needed. In the trunk version of IGB the Affy probe sets are not displayed correctly. To repeat: 1. choose A_thaliana_Jun_2009 2. zoom in on a gene region 3. choose data set IGB (DAS2)->affy->ATH1-121501 note there probe sets data sets for mouse, human, etc you don't have to use A thaliana 4. load data What's happening is that the probe sets are somehow getting put into a different track. What you should see is the attached, a screen capture from IGB 6.5.3, following setting the label field to "id." (I am showing the id in the image so that you can more easily find this probe set again if you need to.) |
| Comment |
[ I have zoomed in on to the gene AT2G33850.1 in A_thaliana_Jun_09. NetAffx (DAS2)>affy>ATH1-121501 is unavailable instead I used IGB Das>>affy>>ATH1-121501 I am unable to see both tracks Data. So I hided the view of A_thaliana_Jun_09. I have zoom on to chr1 : 11,784,030 - 11,785,567 it shows the same thing which is in the 2nd pic. Now what should I test here ??? no idea what to do... ] |
| Status | Reopened [ 4 ] | Resolved [ 5 ] |
| Assignee | Alyssa Gulledge [ alyssa ] | |
| Resolution | Fixed [ 1 ] |
| Status | Resolved [ 5 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Closed [ 6 ] | Reopened [ 4 ] |
| Assignee | Alyssa Gulledge [ alyssa ] |
| Assignee | Alyssa Gulledge [ alyssa ] | Hiral Vora [ hiralv ] |
| Status | Reopened [ 4 ] | Closed [ 6 ] |
| Resolution | Won't Fix [ 2 ] |
| Resolution | Won't Fix [ 2 ] | |
| Status | Closed [ 6 ] | Reopened [ 4 ] |
| Assignee | Hiral Vora [ hiralv ] | Richard Linchangco [ richard ] |
| Status | Reopened [ 4 ] | Resolved [ 5 ] |
| Assignee | Richard Linchangco [ richard ] | Alyssa Gulledge [ alyssa ] |
| Resolution | Fixed [ 1 ] |
| Resolution | Fixed [ 1 ] | |
| Status | Resolved [ 5 ] | Reopened [ 4 ] |
| Assignee | Alyssa Gulledge [ alyssa ] |
| Status | Reopened [ 4 ] | Closed [ 6 ] |
| Resolution | Fixed [ 1 ] |