clintval / vartovcf / 40725438276

98%

Build Type

push

github

Committed by web-flow

Commit Message

feat: write each record's reference 3-mer with --context-3mer (#166)

* feat: write each record's reference 3-mer with --context-3mer

--context-3mer writes INFO CONTEXT_3mer on every record: the reference
bases at POS-1, POS and POS+1 after normalization, uppercase, with N for
a base past either end of the contig. The middle base is never
reverse-complemented to a pyrimidine, so a 192-class spectrum keeps its
strand. The field names its width so a wider context can sit beside it.

* docs: describe CONTEXT_3mer as centered on an indel's anchor base

Coverage Stats

56 of 56 new or added lines in 4 files covered. (100.0%)

1 existing line in 1 file now uncovered.

5852 of 5956 relevant lines covered (98.25%)

121167.18 hits per line