Is there a file size limitation for samtools pileup command? I converted a 82GB sam file (output from bowtie) into a 25 GB compressed bam and then sorted it using samtools. Now when I try running samtools pileup on the sorted file (25GB), samtools quits saying memory leak. If samtools cannot handle large file, is there a way to split the sorted bam, analyze it with samtools pileup separately and then merge the output.
Thanks.
Thanks.
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