Question: Qualimap out of memory
0
gravatar for mar77
9 weeks ago by
mar770
mar770 wrote:

I'm trying to use qualimap to do a quality check of my bam files generated with hisat2. I keep getting an 'out of memory' error message. I've seen that I can set desired memory size with the example being

qualimap --java-mem-size=1200M

Is anyone able to explain to me what the 1200m is in relation to? And what is the default for qualimap?

rna-seq memory qc qualimap • 118 views
ADD COMMENTlink written 9 weeks ago by mar770
2

1200M is most likely 1200 Mb (or 1.2 Gb). Try setting it to 70-80% of your actual memory.

ADD REPLYlink written 9 weeks ago by Mensur Dlakic6.0k
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