packed_seq/
packed_n_seq.rs

1use super::*;
2
3#[derive(Clone, Copy, Debug, MemSize, MemDbg)]
4#[cfg_attr(feature = "pyo3", pyo3::pyclass)]
5#[cfg_attr(feature = "epserde", derive(epserde::Epserde))]
6pub struct PackedNSeq<'s> {
7    pub seq: PackedSeq<'s>,
8    pub ambiguous: BitSeq<'s>,
9}
10
11#[derive(Clone, Debug, MemSize, MemDbg)]
12#[cfg_attr(feature = "pyo3", pyo3::pyclass)]
13#[cfg_attr(feature = "epserde", derive(epserde::Epserde))]
14pub struct PackedNSeqVec {
15    pub seq: PackedSeqVec,
16    pub ambiguous: BitSeqVec,
17}
18
19/// Implement a subset of `Seq` for `PackedNSeq`.
20impl<'s> PackedNSeq<'s> {
21    pub fn to_revcomp(&self) -> PackedNSeqVec {
22        PackedNSeqVec {
23            seq: self.seq.to_revcomp(),
24            ambiguous: self.ambiguous.to_revcomp(),
25        }
26    }
27}
28
29/// Implement a subset of `SeqVec` for `PackedNSeqVec`.
30impl PackedNSeqVec {
31    pub fn random(len: usize, n_frac: f32) -> Self {
32        let seq = PackedSeqVec::random(len);
33        let ambiguous = BitSeqVec::random(len, n_frac);
34        Self { seq, ambiguous }
35    }
36
37    pub fn as_slice(&self) -> PackedNSeq<'_> {
38        PackedNSeq {
39            seq: self.seq.as_slice(),
40            ambiguous: self.ambiguous.as_slice(),
41        }
42    }
43
44    pub fn from_ascii(seq: &[u8]) -> Self {
45        Self {
46            seq: PackedSeqVec::from_ascii(seq),
47            ambiguous: BitSeqVec::from_ascii(seq),
48        }
49    }
50}
packed_seq/packed_n_seq.rs

packed_seq/
packed_n_seq.rs
