Hi there
I have MiSeq data and I wish to perform plant De novo assembly.
I removed the PCR duplicates using FastUniq and now I wish to form a metagenome merging the overlapping reads into longer ones. Afterwards I shall do a denovo assembly using Discovar.
I read this blog here: http://thegenomefactory.blogspot.in/...aired-end.html
Although it isn't updated I have also read about other tools like BBMerge.
My question is: I read a lot of conflicting opinions on whether this merging of overlapping reads should even be done. Are there any solid benchmarks on which available software is the best for this role?
I want an assembly that preferably does not tolerate false positives.
I have MiSeq data and I wish to perform plant De novo assembly.
I removed the PCR duplicates using FastUniq and now I wish to form a metagenome merging the overlapping reads into longer ones. Afterwards I shall do a denovo assembly using Discovar.
I read this blog here: http://thegenomefactory.blogspot.in/...aired-end.html
Although it isn't updated I have also read about other tools like BBMerge.
My question is: I read a lot of conflicting opinions on whether this merging of overlapping reads should even be done. Are there any solid benchmarks on which available software is the best for this role?
I want an assembly that preferably does not tolerate false positives.
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