I am starting in the field of bioinformatics, could you indicate good metagenome assemblers?
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Rubemsilva32 •
Don't know how one can choose the best assembler, but these two should be a good starting point:
Actually, if you are dealing with viruses or phages these are the best assemblers compared using a public benchmark set:
s-aligner is first followed by metaSPAdes.
Reference: s-aligner: a greedy algorithm for non-greedy de novo genome assembly
Hi: After the test in our lab, mitofinder --metaspades gain the best result, you can also get mitochondrial data.
Is there any difference between mitofinder -metaspades and just metaSPAdes? Looks like mitofinder is not an assembler and just calls metaSPAdes.
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Then edit your post to include more information, such as the what type of data you have, how much data, and so on. Also, perform a good bibliographic review and see which assemblers would do a good job for your data.