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How to rename the paths in the surject result(.bam) #4470

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dudududu12138 opened this issue Dec 6, 2024 · 0 comments
Open

How to rename the paths in the surject result(.bam) #4470

dudududu12138 opened this issue Dec 6, 2024 · 0 comments

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@dudududu12138
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Hi, I used the Minigraph Cactus graph as a reference for analysis. And I ran vg surject to convert my .gam result to .bam. But the path name in Minigraph Cactus is like GRCh38#0#chr1, so the contig names in the surject result bam file are also like this. Is there any parameter to change the contig name? Just leave “chr1” and delete “GRCh38#0#”? Or is it only possible to change it myself with a shell script?

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