Using meryl to prepare for Merqury

[aureliendejode]

Hi,

I'd like to evaluate my assembly. I have several Illumina fastq files. For each library I have one fastq file for Forward and one for Reverse reads. What is the best way to use Meryl in the goal of using that output for Merqury: Is something like this okay: meryl count k=21 lib1_1.fastq lib1_2.fastq lib2_1.fastq lib2_2.fastq ... output Illumina.meryl

Thanks

[brianwalenz]

That will work.

You might want to limit memory and thread usage with memory=<limit in GB> and threads=<number of CPUs to use>. By default, it will use as much memory as it wants and all the CPUs.

[aureliendejode]

Thanks, I used those 2 options and it worked.