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Old 06-22-2018, 01:00 AM   #1
prishlyK
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Location: Russia

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Default Tool for grouping sequences into clusters with homology within each above threshold

Is there a tool/script/algorithm for grouping sequences into bins so that within each group homology for any two sequences is above (or equal to) a certain threshold value (unless there's only one sequence in a bin)? Some sequences may end up being chimeric, some bins may end up containing a single sequence but only if they don't fit into all other bins. Asked this on biostars, but got no replies.

Last edited by prishlyK; 06-22-2018 at 01:03 AM.
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Old 06-22-2018, 03:02 AM   #2
GenoMax
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Take a look at CD-HIT.
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alignment, ngs, sequence clustering

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