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Search TFBS with weight matrix output problem (Read 4585 times)
Apr 25th, 2014 at 3:56am

AK   Offline
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Hi,

I am trying your workflow designer for the first time and am really impressed by the progress Ugene has made in past few years. Nice work !!

But I need your help in getting the results out in human readable format. So all I want to do is read a frequency matrix and search a set of sequences (n=46) for the TFBS. Finally output the results in a format that tells me the sequence name, coordinates of match,length,score etc.

To do so I created a workflow (attached) but there are two problems I am facing 1) The output format is 'annotation' and it shows result for only one sequence instead of all 46 sequences 2) 'Annotation' output format is not good for human reading, how can I get a csv format with sequence name, match co-ordinates and score. Is it possible to get a single result file for all 46 sequences?

Awaiting Reply

AK
 

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Reply #1 - Apr 25th, 2014 at 11:09pm

AK   Offline
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Anybody listening Smiley
 
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Reply #2 - May 9th, 2014 at 3:16pm

Yuriy Vaskin   Offline
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Try to save annotions in CSV format. You can select the format as a property of the Write Annotations element.
 
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