User: mike.thon

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mike.thon30
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New User
Location:
Spain
Website:
http://www.michaelrtho...
Twitter:
@mthon
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Google Scholar Page
Last seen:
4 years ago
Joined:
8 years, 3 months ago
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m********@gmail.com

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Posts by mike.thon

<prev • 9 results • page 1 of 1 • next >
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Answer: A: Query on sequence analysis
... Either the sequences are very divergent (low sequence similarity) or they are not aligned correctly. ...
written 4.0 years ago by mike.thon30
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Comment: C: How to color KEGG pathway maps?
... Thanks! I just discovered my text editor was set to auto-expand tabs, converting them to spaces. Now its working. ...
written 4.0 years ago by mike.thon30
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How to color KEGG pathway maps?
... I'm trying to use the [KEGG Mapper][1] to create a colored pathway map based on gene expression. The tool seems to work on the provided test data but not on my data/pathway combination. I select my desired pathway in the first box (zma00940) and then select my data file, which has the following ge ...
kegg written 4.0 years ago by mike.thon30
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Comment: C: KEGG Mapper error
... Thanks, that fixed the error in my original question but the enzymes in the pathway map image don't seem to be color shaded. there must be some other problem with my input data. Well, I'll keep at it and post another question if I can't figure it out. ...
written 4.1 years ago by mike.thon30
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KEGG Mapper error
... I'm trying to decorate some kegg pathway maps with expression data using the [KEGG Mapper from the kegg website][1]. In the first text field I enter the kegg pathway of interest (zma00940) and then I upload a text file with my test data (see below). I click 'exec' but I get an error: 0 does not e ...
kegg written 4.1 years ago by mike.thon30 • updated 4.1 years ago by Lars Juhl Jensen11k
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how to filter cuffdiff results by alignment count?
... I have an RNA-seq dataset with three replicates from plant leaves infected with a pathogen and I would like to analyze the expression of the pathogen genes, if possible. I'm expecting the % of pathogen reads in the data set to be < 10% of the reads. I am aligning the reads to the pathogen and pl ...
cufflinks rna-seq written 4.3 years ago by mike.thon30 • updated 4.2 years ago by Biostar ♦♦ 20
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How to validate GFF3?
... What tools are available to validate a GFF3 format file? I tried the one recommended by the Sequence Ontology Project but it has been offline every time I try it. I also tried GenomeTools. It helps but it does not catch all of the errors. ...
gff written 4.9 years ago by mike.thon30 • updated 4.7 years ago by rmf1.0k
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How can I find annotated proteins from high level GO terms?
... I have GO annotations for a non-model organism and I did an enrichment test using the goatools script find_enrichment.py. There does not seem to be a way to print a list of genes associated with the enriched GO terms. So, given a GO term, how can I make a list of all genes associated with all child ...
goatools gene ontology gene annotation written 5.7 years ago by mike.thon30 • updated 5.5 years ago by Biostar ♦♦ 20
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Comment: C: Sge,Torque, Pbs : What'S The Best Choise For A Ngs Dedicated Cluster ?
... +1 Rocks - If you're setting up a dedicated cluster, it will save you a lot of time and pain. ...
written 8.3 years ago by mike.thon30

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