User: biotech

gravatar for biotech
biotech160
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2 years, 8 months ago
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6 years, 1 month ago
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Posts by biotech

<prev • 18 results • page 1 of 2 • next >
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Comment: C: readDGE function does not exist
... Seems edgeR package was not installed. ...
written 3.0 years ago by biotech160
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readDGE function does not exist
... Seems 'readDGE' function from the package edgeR does not exist any more, but in the manual is still used. How is that possible?   ...
edger written 3.0 years ago by biotech160 • updated 3.0 years ago by Aaron Lun25k
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edgeR for CNV detection
... Is it possible to use RNA-seq tools for getting P-values for gene duplication detection based of gene coverage? I have a list of genes vs read counts. I thought about: 1. mapping reads of wild type vs wild type genome 2. mapping mutant vs wild type genome 3. obtain gene counts 4. compare gene co ...
edger written 3.5 years ago by biotech160 • updated 3.5 years ago by Ryan C. Thompson7.4k
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Please revise this edgeR code
... Hi guys, I would you to revise my edgeR code since it's possible I missed something important because being quite new on this. Thanks, Bernardo P.S. This questions has also been posted in Biostar forum: https://www.biostars.org/p/99849/ ######################################################### ...
alignment organism topgo edger written 5.6 years ago by biotech160
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Is this edgeR code OK?
... Hi guys, I would you to revise my edgeR code since it's possible I missed something important because being quite new on this. Thanks, Bernard P.S. This question has also been poster in Biostar forum: https://www.biostars.org/p/99849/ ############################################################ ...
alignment organism topgo edger written 5.6 years ago by biotech160
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Any COG enrichment tools?
... Hi, I'm looking for a tool able to perform enrichment analysis with COGs. I've using TopGO for GO enrichment and now I would like to do the same with COGs. Thanks, Bernardo -- *Bernardo Bello Ortí* PhD student CReSA-IRTA Campus de Bellaterra-Universitat Autònoma de Barcelona Edifici CReSA 0 ...
go topgo written 5.7 years ago by biotech160
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Comment: C: Improve Bioconductor mailing list with tags
... That's great news! Bioconductor deserves that and more. On 29 Nov 2013 20:16, "Martin Morgan" wrote: > On 11/29/2013 10:56 AM, Bernardo Bello wrote: > >> Hi community, >> >> Although I've been lucky getting help in most of my questions in this >> mailing list, I thin ...
written 6.0 years ago by biotech160
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Improve Bioconductor mailing list with tags
... Hi community, Although I've been lucky getting help in most of my questions in this mailing list, I think thread tagging would be very useful. Let me know what you think about this idea and how you manage the increasing number of questions. Thanks for your responses. Best regards, Bernardo -- * ...
written 6.0 years ago by biotech160 • updated 6.0 years ago by Martin Morgan ♦♦ 24k
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How to compare GO term lists and create matching network?
... Hi community, I would like to compare three lists of GO terms, coming from an enrichment analysis and create a network figure and some tables with shared GO terms. Since a simple Venn diagram will not take into account possible parent absence in some samples, could someone suggest me the appropriat ...
go network gui organism written 6.1 years ago by biotech160 • updated 6.1 years ago by Paul Shannon750
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Adding logFC values to a custom annotation TopGO object
... Hi community, I would like to compute Kolmogorov-Smirnov like tests. I built a TopGOobject with custom annotations and predefined list of interesting genes (those having logFC larger than a chosen threshold). Could you please suggest me how to add logFC values to my TopGO object? Here is the code ...
written 6.1 years ago by biotech160

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