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Old 12-13-2011, 10:36 PM   #2
hanshart
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Location: Germany

Join Date: Nov 2011
Posts: 27
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Hi,

From http://www.broadinstitute.org/software/igv/BAM:
Quote:
Indexing: IGV requires that both SAM and BAM files be sorted by position and indexed
You can use samtools for sorting and indexing the BAM file using the commands
Code:
samtools sort aln.bam aln.sorted
samtools index aln.sorted.bam
Maybe this helps

cheers
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