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implementation de obilowmask

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This commit is contained in:
Eric Coissac
2025-10-20 17:43:25 +02:00
parent 07cdd6f758
commit 4603d7973e
13 changed files with 12636 additions and 2 deletions
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6
pkg/obikmer/encodefourmer.go
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@@ -23,6 +23,10 @@ var __single_base_code__ = []byte{0,
0, 0, 0,
}
func EncodeNucleotide(b byte) byte {
return __single_base_code__[b&31]
}
// Encode4mer transforms an obiseq.BioSequence into a sequence
// of kmer of length 4. Each letter of the sequence not belonging
// A, C, G, T, U are considered as a A. The kmer is encoded as a byte
@@ -54,7 +58,7 @@ func Encode4mer(seq *obiseq.BioSequence, buffer *[]byte) []byte {
code = 0
for ; i < 4; i++ {
code <<= 2
code += __single_base_code__[rawseq[i]&31]
code += EncodeNucleotide(rawseq[i])
}
*buffer = append((*buffer), code)