Question: PacBio reads polishing
0
gravatar for Ric
21 months ago by
Ric280
Australia
Ric280 wrote:

Hi, I ran dextractor (https://github.com/thegenemyers/DEXTRACTOR) and it generated X.subreads.arrow and a FASTA file. How could I polish the reads before the assembly?

Thank you in advance.

pacbio assembly • 809 views
ADD COMMENTlink written 21 months ago by Ric280

What are you trying to do ? Assembling what?

If just going for a general bacterial assembly, canu just takes one command to polish and assemble.

If you want to follow the DAZZLER approach I think you'd best start with FALCON https://github.com/PacificBiosciences/FALCON

ADD REPLYlink written 21 months ago by colindaven1.7k

Yes, I try to do an assembly. On our cluster CANU makes always some problems to run and FALCON completely is not working.

ADD REPLYlink written 21 months ago by Ric280

Yes, I try to do an assembly. On our cluster CANU makes always some problems to run and FALCON completely is not working.

ADD REPLYlink written 21 months ago by Ric280
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