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brentp / bwa-meth

fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome
https://arxiv.org/abs/1401.1129
MIT License
139 stars 53 forks source link

ERNE-BS5 #40

Closed lmanchon closed 7 years ago

lmanchon commented 7 years ago

--Hi,

is Bwa-Meth use a similar algorithm as ERNE-BS5 (https://sourceforge.net/projects/erne/) ? And is somebody has already try to align and tabulate Bs-seq reads with Bwa-Meth and then use to-mr from MethPipe (https://github.com/smithlabcode/methpipe) ?

thank you --

brentp commented 7 years ago

is Bwa-Meth use a similar algorithm as ERNE-BS5 (https://sourceforge.net/projects/erne/) ?

I don't think so.

And is somebody has already try to align and tabulate Bs-seq reads with Bwa-Meth and then use to-mr from MethPipe (https://github.com/smithlabcode/methpipe) ?

There could be people doing that, but I still recommend to use PileOMeth