User: dandrew

gravatar for dandrew
dandrew10
Reputation:
10
Status:
New User
Location:
United States
Last seen:
2 years, 4 months ago
Joined:
2 years, 6 months ago
Email:
d******@uga.edu

Posts by dandrew

<prev • 6 results • page 1 of 1 • next >
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Comment: C: error 139 ()
... Interesting. Thanks for your reply. However, I have done at least 2 other data sets (6h and 1.5h) with condition names in the same format which have not developed this error (if i understand your explanation correctly). With respect to the gtf and genome files. I have previously posted to biostar re ...
written 2.3 years ago by dandrew10
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error 139 ()
... Got an error 139 running some data sets. All my cuffdiff output generates the same error.  I have run many similar time points which were all produced similarly so i can't imagine anything new and different popped up at this late stage in the experiment. The genome and annotation data are the same a ...
galaxy software error rna-seq written 2.3 years ago by dandrew10 • updated 2.3 years ago by Jennifer Hillman Jackson23k
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Comment: C: Galaxy and transgenic organisms
... Thanks for your reply, All i need to add is one gene seq. The others will be native genes that react to the induction of the transgene and will be simple to follow. Can you give me some more explanatory information on your statement ,"integrate this artificial genome in a next step into Galaxy"? I ...
written 2.5 years ago by dandrew10
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Galaxy and transgenic organisms
... Greetings, I am using Galaxy to analyze some RNA-seq time-course experiments. These exp's involve monitoring the induction of a viral transgene (and other genes that are coordinately induced) when compared to uninduced controls in a transgenic organism. How do I go about adding my transgene and pr ...
galaxy rna-seq written 2.5 years ago by dandrew10 • updated 2.5 years ago by Bjoern Gruening4.8k
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Does 'differential' = 'unique' = 'specific' in Galaxy?
...   Greetings, I've done about a dozen RNA-seq datasets and the results i get as "differential' are either a few seqs uniquely expressed in only one of the treatments or an empty set. I get hundreds of transcripts expressed at varying levels between the two treatments but these are never called as b ...
galaxy rna-seq written 2.5 years ago by dandrew10 • updated 2.5 years ago by Jennifer Hillman Jackson23k
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cuffmerge does not recognize gtf's
... Cuffmerge does not recognize my assembled transcript files. Says "No GTF dataset collection available".   Viz. 47 Cufflinks on data 1 and data 34: assembled transcripts 23,631 lines formatgtf databasehg19 ...
cufflinks written 2.6 years ago by dandrew10

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