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Getbamcounts In Exomedepth Package

when I run the function getBamCounts in ExomeDepth pakage , there is a error as follow. Can anyone tell me what is the problem?

H9.counts <- getBamCounts(bed.frame= exons.hg19,bam.files="H9_exome_b37.bam.pr efix.bam",include.chr=FALSE,referenceFasta="/rd/data/genomes/human/GRCh37/human_g1k_v37.fasta")

Reference fasta file provided so exomeDepth will compute the GC content in each window

Floating point exception

bam exome
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updated by Biostar Biostar • written by siyu • siyu

Is the issue coming from the GC content computation? If you do not specify the referenceFasta option at all, it will skip this step. Do you get the same error then?

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written by vincent.plagnol • vincent.plagnol

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