User: peter_stokes

gravatar for peter_stokes
peter_stokes10
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New User
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3 months, 1 week ago
Joined:
9 months ago
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p***********@berkeley.edu

Posts by peter_stokes

<prev • 6 results • page 1 of 1 • next >
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Strategy help: searching for potential gene degradation (domestication)
... Hi biostar community! I am hoping for some advice on where to start for a project I have in mind. Say, I am studying the domestication of species X. I have various elite cultivars, landraces, and wild accessions of species X. An elite cultivar of species X has been studied in moderate depth and im ...
genome assembly alignment snp written 7 months ago by peter_stokes10
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Comment: C: Mapping assembly to existing annotated genome
... Hi there! Thanks for your response! Does not have to be web based, I am happy using a command line/server based program as well. ...
written 7 months ago by peter_stokes10
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Mapping assembly to existing annotated genome
... Hi all! You were very helpful with my last assembly-related question, so perhaps you can help me again. I am trying to map an assembly I performed to an existing annotated genome. I assembled a wild sunflower sample and want to map it to an elite cultivar that has already been mapped and annotated. ...
assembly written 7 months ago by peter_stokes10 • updated 7 months ago by h.mon21k
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Answer: A: 10X Genomica Supernova Troubleshooting
... Hey all! Sorry for the long hiatus! Turns out, it has an automatic checkpoint (so long as you don't adjust your script!!!!). I was making the mistake of constantly changing my script to increase efficiency. In doing so, upon submitting the job, the scheduler would see that as a new job, and overw ...
written 7 months ago by peter_stokes10
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Comment: C: 10X Genomica Supernova Troubleshooting
... Hi Genomax, Thanks for your reply. I am so new to anything computational biology related, as I am a first year rotating graduate student - please bear with me. I have read many other troubleshooting posts on this forum. I am working with SDSC to see if I can incorporate checkpoint restart in my scr ...
written 9 months ago by peter_stokes10 • updated 9 months ago by genomax59k
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10X Genomica Supernova Troubleshooting
... Hi all! I am attempting to perform de novo assembly of sunflower with Supernova 2.0.0. I am having some difficulty getting it to finish within the wallclock limit for resources I am using. I have a wallclock limit of 48 hours on SDSC Comet (64 cores, 1.4TB memory) and 72 hours on Savio here at UC ...
assembly written 9 months ago by peter_stokes10

Latest awards to peter_stokes

Scholar 7 months ago, created an answer that has been accepted. For A: 10X Genomica Supernova Troubleshooting

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