What tools would you recommend to visualize blast tsv output? I found several ones but none of them work with tab (or comma) delimited formats.
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Hello everyone!
Please help.
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Comma/tab delimited formats are used for ease of programmatic parsing. What kind of visualization do you want to generate with those formats?Comment
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Something as simple as a line connecting matches would be enough. Or maybe coloring matches with the same color. Kablammo is an example, but it doesn't take tsv formats as input (http://kablammo.wasmuthlab.org/).
As you said, tsv/csv formats are easier for parsing and manipulating. I've filtered the hits in the tsv output accoding to many criteria and would like to visualize those remaining hits.Comment
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It may be worth looking into converting the results into a bed file and then use that for visualization.Comment
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x=genetic distance from my genome , interval, maybe logarithmic
y(x)=number of organisms in the database with that distance
where to find that, how is it called ?Comment
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For the record, I wrote Perl scripts to convert the filtered TSV output into pairwise format, using the original pairwise hits. I then used the pairwise output for visualization.
Since I'm more interested in structural variations, a BED format wouldn't be really helpful.Comment
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