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Old 12-15-2013, 12:36 PM   #1
Mike DS
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Location: München

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Default fragment recruitment plot: metagenomics

There used to be fragment recruitment plot tools available online (web servers) but now I see none (not at MG-RAST or CAMERA). I want to do standard plots (horizontal line of reference sequence, with recruited fragments from NGS or sanger reads of metagenome data). I am guessing that everyone now just uses short-read assemblers, but I would like to check that there is not some useful website somewhere that will do some of the work for me (i.e. I upload data, they do the recruitment and output a nice plot).
Otherwise, is there a standard protocol (step-by-step) that someone has or knows of, and can point me in the right direction. I have FR-Hit, but before I get it up and running, I want to check what others use.
Thanks, Mike DS
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Old 08-12-2015, 10:32 AM   #2
incubusfang
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https://toolshed.g2.bx.psu.edu/repos...n=6d94241370cc I guess this is what you want, though I came here quite late
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