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Issue with the concertation .bam files to .bedpe #50

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Oksanak22 opened this issue Feb 7, 2023 · 0 comments
Open

Issue with the concertation .bam files to .bedpe #50

Oksanak22 opened this issue Feb 7, 2023 · 0 comments

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@Oksanak22
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Oksanak22 commented Feb 7, 2023 •
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Hello.

I got a bunch of bam files from the pipeline. I merged them all together with
samtools merge all.bam *.coord_sort.bam and to proceed with the analysis I have to convert all.bam to all.bedpe.

How I can correctly do it because with the bedtools bamtobed i got an empty .bedpe file. I need this kind of file to visualize it in IGV.

Best
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