User: Jason

gravatar for Jason
Jason30
Reputation:
30
Status:
New User
Location:
United States
Last seen:
1 month, 1 week ago
Joined:
2 years, 11 months ago
Email:
j*****@psu.edu

Posts by Jason

<prev • 7 results • page 1 of 1 • next >
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Comment: C: Error when trying to change email: Uncaught exception in exposed API method:
... Just tried it now and I'm still getting the same error message. ...
written 5 weeks ago by Jason30
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Error when trying to change email: Uncaught exception in exposed API method:
... I'm using usegalaxy.org and trying to change my email to a different email. After I go into preferences and manage information and try to save setting with the new email it says "Uncaught exception in exposed API method:" A previous post mentioned a similar problem but it was said that galaxy ha ...
galaxy written 5 weeks ago by Jason30 • updated 5 weeks ago by Martin Čech ♦♦ 3.8k
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Comment: C: Why are the SOLiD mapping functions gone?
... Thanks, I created an account with GVL QLD instance of galaxy, they have the SOLiD mappers there and most of the basic NGS tools too.   ...
written 2.7 years ago by Jason30
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Why are the SOLiD mapping functions gone?
... I noticed that under the NGS mapping section, all of the SOLiD functions are gone. Are they only down for maintenance or have they been permanently removed? If the former, when will they be back? If the latter, why were they removed and how can people with SOLiD data map their reads using galaxy? I ...
bowtie solid written 2.7 years ago by Jason30 • updated 2.7 years ago by Jennifer Hillman Jackson22k
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When displaying a BAM file in the UCSC browser, will all the data be shown?
... I have recently mapped RNA-seq reads to the sacCer2 genome using bowtie in galaxy. I then filtered the SAM file for reads that mapped. Then I converted to bam and clicked the link to visualize in the UCSC browser. My question is will every single read be displayed in the UCSC browser or does it rand ...
ucsc browser bam rna-seq written 2.9 years ago by Jason30 • updated 2.9 years ago by Bjoern Gruening4.5k
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Comment: C: How do I obtain uniquely mappable reads from bowtie on galaxy?
... Thanks, I figured it might be that but I wasn't sure. Also, do you know why the lines in my output went from 50 million to 20 million when I went from sam to bed?  ...
written 3.0 years ago by Jason30
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How do I obtain uniquely mappable reads from bowtie on galaxy?
... Hello, I'm using bowtie on Galaxy to map my RNA-seq reads to the sacCer2 yeast ref genome. I was wondering which option or flag is responsible for making sure I have an output of uniquely mappable reads?  My workflow is the following: 1. Start with SOLiD output in the form of .csfasta reads and . ...
rna-seq bowtie solid written 3.0 years ago by Jason30 • updated 3.0 years ago by Bjoern Gruening4.5k

Latest awards to Jason

Popular Question 2.7 years ago, created a question with more than 1,000 views. For When displaying a BAM file in the UCSC browser, will all the data be shown?
Popular Question 2.7 years ago, created a question with more than 1,000 views. For How do I obtain uniquely mappable reads from bowtie on galaxy?

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