feat: added parser for bionano custom file formats #603
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src/io/cmap.rs
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| pub struct Record { | ||
| id: u32, | ||
| len: f64, | ||
| num_labels: u32, | ||
| label_channel: u8, | ||
| labels: Vec<Label>, | ||
| } |
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Why does a cmap record not have a contig name?
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There are no contig names in CMAPs; they are identified solely by their integer ID.
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I see. Where are the contig names stored then?
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Nowhere. Bionano formats do not have any contig names and do not seem to support them at all.
If you convert a FASTA (with existing contig names) to a CMAP, you could store this information separately and integrate it later on if desired. Note that this will only work if you do not use a reference already in CMAP format, unlike the ones Bionano or FaNDOM provide, so this is not universally applicable.
For OM2DNA, I have always used CMAPs converted from FASTAs though.
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Then the .fai of the fasta is the right source.
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