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twolinin / longphase

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Phasing SVs without --report_readid #23

Open agolicz opened 1 year ago

agolicz commented 1 year ago

Hi, We have some older SVs generated by cuteSV but without the --report_readid. The old mappings no longer exist. We would like to phase using a different set of mappings. Is the absence of --report_readid likely to affect the results? Best, Agnieszka

ythuang0522 commented 1 year ago

Hi @agolicz, Yes. the read IDs carrying SVs are essential during co-phasing SNPs/SVs. I am afraid you have to recall the SVs. Otherwise, the program can't partition reads into SV- and non-SV groups properly. --Yao-Ting