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Diploid asm #5

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bsb2014 opened this issue Sep 20, 2023 · 2 comments
Closed

Diploid asm #5

bsb2014 opened this issue Sep 20, 2023 · 2 comments

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@bsb2014
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bsb2014 commented Sep 20, 2023 •
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Can the SpecHLA work with diploid assembly as HLA*ASM? Possibly, long-read option works for that? Thanks!
@wshuai294
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Hello, as you said, I think the diploid assembly can be converted to the fastq format like long-read data (generate multiple reads for each assembly), and the long-read option can be used for typing. Also, it might be a good choice to directly align each assembly to the IMGT database using minimap2 for typing annotation.

@bsb2014 bsb2014 closed this as completed Sep 26, 2023
@wshuai294
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Solved in #14

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@wshuai294 @bsb2014