User: utkarsh.kapoor

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Location:
University of Vienna, Austria
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2 years, 2 months ago
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u*************@univie.ac.at

Posts by utkarsh.kapoor

<prev • 9 results • page 1 of 1 • next >
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TAB to VCF
... Hi, I have a TAB delimited file. How can I convert it into a VCF format for downstream usage. Thanks, Utkarsh ...
vcf datatype galaxy convert tab written 2 days ago by utkarsh.kapoor50 • updated 2 days ago by Jennifer Hillman Jackson25k
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Chromosome Coordinates to Annotation
... Hello, If I have specific chromosome coordinates, how do I find out if this region is Exon or Intron or UTR? eg. chr9:7205401-7206719 is within an Intron. I have a long list and can't do this manually. Any suggestions? Also, my analysis was performed using GENCODE annotation for Mouse (mm10). So ...
coordinate join overlap annotation intervals written 8 weeks ago by utkarsh.kapoor50 • updated 8 weeks ago by Jennifer Hillman Jackson25k
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Creating Trackhub and uploading data from Galaxy to CyVerse
... Hi, I want to create a trackhub for displaying all my data in UCSC Genome Browser. As suggested by UCSC, CyVerse would be a good platform to host my data. However, I need guidelines on how to send my data from my Galaxy account to CyVerse? I don't manage to locate the URLs of my uploaded BAM or cre ...
cyverse rna-seq ucsc trackhub written 3 months ago by utkarsh.kapoor50 • updated 3 months ago by Jennifer Hillman Jackson25k
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Comment: C: Problems with connection to FTP server (SSL/TLS required)
... My Settings are follows: Connect using FTP-SSL (Explicit AUTH TLS) Server: usegalaxy.org Port (default) 21 URL: ftps://username@xxxx.com@usegalaxy.org (eg. ftps://john.oliver@gmail.com@usegalaxy.org) SSH Private Key: None Client Certificate: None ...
written 6 months ago by utkarsh.kapoor50
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Answer: A: Problems with connection to FTP server (SSL/TLS required)
... HI, Have you tried to use an alternative FTP Client? I'm currently using Cyberduck and my upload is in progress as I type. Hope this helps. Cheers, Utkarsh ...
written 6 months ago by utkarsh.kapoor50
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Comment: C: RNA STAR -Gapped-read mapper for RNA-seq data (Galaxy Version 2.5.2b-0)
... Thanks. I found the information for STAR. Could you please share the info for Salmon too? Currently, I see "No Options Available" ...
written 7 months ago by utkarsh.kapoor50
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Comment: C: RNA STAR -Gapped-read mapper for RNA-seq data (Galaxy Version 2.5.2b-0)
... Hi Jennifer, I tried to look this up again this morning and I could'nt find the indexes for STAR or even Salmon in there. Is this an issue on my end or have the indexes not been added yet? I am referring to the Galaxy Main Server and not the Test Server. Best, Utkarsh ...
written 7 months ago by utkarsh.kapoor50
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Comment: C: RNA STAR -Gapped-read mapper for RNA-seq data (Galaxy Version 2.5.2b-0)
... Hi Jennifer, Thanks a lot for the response. Just to get an idea, please define "soon" :) Are you talking a couple of days or weeks? Best, Utkarsh ...
written 11 months ago by utkarsh.kapoor50
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RNA STAR -Gapped-read mapper for RNA-seq data (Galaxy Version 2.5.2b-0)
... Hi, Now that Galaxy has introduced RNA Star in their list of tools in NGS: RNA Analysis, I wanted to try it out. However, when I want to select the reference genome from its drop down menu, there are no options whatsoever. I want to use Mouse (mm10) for my analysis but I don't see any genome in the ...
star rna-seq written 11 months ago by utkarsh.kapoor50 • updated 11 months ago by Jennifer Hillman Jackson25k

Latest awards to utkarsh.kapoor

Scholar 5 months ago, created an answer that has been accepted. For A: Problems with connection to FTP server (SSL/TLS required)
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: Problems with connection to FTP server (SSL/TLS required)

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