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[Feature]: Add getter for alignment of a haplotype to its reference #39

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MillironX opened this issue Mar 29, 2023 · 0 comments · May be fixed by #42
Open

[Feature]: Add getter for alignment of a haplotype to its reference #39

MillironX opened this issue Mar 29, 2023 · 0 comments · May be fixed by #42
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enhancement New feature or request

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Expected behavior

We should add some functions

BioAlignments.alignment(::Haplotype{S,T}) where {S,T}
BioAlignments.cigar(::Haplotype{S,T}) where {S,T}

which would return the PairwiseAlignment or String representing the alignment.

Current behavior

Doesn't exist

Possible implementation

~

Context

Haplotypes contain, at their heart, an alignment between the variant strand and the reference strand. There is currently no way to get this information out.

Link to your project

No response
@MillironX MillironX added the enhancement New feature or request label Mar 29, 2023
@MillironX MillironX self-assigned this Mar 29, 2023
@MillironX MillironX mentioned this issue Mar 29, 2023
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@MillironX MillironX linked a pull request Apr 9, 2023 that will close this issue
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[Feature]: Add alignment and cigar getters MillironX/SequenceVariation.jl
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