code wiki / align
topic: align
19 modules sharing the align name family (derived from the tree's prefix discipline).
| module | description | lines | funcs |
|---|---|---|---|
| nx_align.nx | Smith-Waterman local alignment, linear-gap. | 164 | 3 |
| nx_align_affine.nx | Smith-Waterman local alignment, AFFINE gap. | 199 | 2 |
| nx_align_affine_test.nx | KAT for Gotoh 1982 affine-gap SW. | 139 | 1 |
| nx_align_backtrace.nx | Smith-Waterman backtrace with CIGAR output. | 474 | 2 |
| nx_align_backtrace_test.nx | KAT for SW backtrace + CIGAR ops. | 209 | 1 |
| nx_align_chain.nx | co-linear seed-chain dynamic programming. | 153 | 1 |
| nx_align_chain_stranded.nx | strand-partitioned co-linear chain DP. | 162 | 1 |
| nx_align_chain_stranded_test.nx | KAT for strand-partitioned chain. | 136 | 1 |
| nx_align_chain_test.nx | KAT for the co-linear seed-chain DP. | 161 | 1 |
| nx_align_gate.nx | VERDICT gate for flexbox align-items (cross-axis alignment). A 100px-tall flex row | 142 | 7 |
| nx_align_match.nx | minimizer-based seed match (query vs reference). | 215 | 4 |
| nx_align_match_stranded.nx | strand-aware seed matcher. | 144 | 1 |
| nx_align_match_stranded_test.nx | KAT for strand-aware seed matcher. | 173 | 1 |
| nx_align_match_test.nx | end-to-end seed-pipeline KAT. | 251 | 1 |
| nx_align_minimizer.nx | canonical k-mer minimizer extraction. | 154 | 2 |
| nx_align_minimizer_test.nx | KAT for minimizer extraction. | 135 | 1 |
| nx_align_score.nx | score chained alignment via Smith-Waterman. | 153 | 2 |
| nx_align_score_test.nx | end-to-end seed-and-extend pipeline KAT. | 185 | 1 |
| nx_align_test.nx | KAT for Smith-Waterman local alignment. | 156 | 2 |