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Don't include official alt contigs in reference? #14

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MBMumphrey opened this issue May 27, 2020 · 0 comments
Open

Don't include official alt contigs in reference? #14

MBMumphrey opened this issue May 27, 2020 · 0 comments
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question Further information is requested

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@MBMumphrey
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The official alt contigs, for example the alt contigs that cover the entire HLA or KIR regions, can soak up reads such that they do not make it to the provided alt seqs. It may be better to not use them at all.
@MBMumphrey MBMumphrey added the question Further information is requested label May 27, 2020
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