BitVecAlignmentScore
- Function
- October 8, 2025
Table of Contents
BitVecAlignmentScore
BitVecAlignmentScoreDescription
Calculate alignment score between two bitvectors. Used in bioinformatics-style sequence alignment with match/mismatch scoring.
Parameters
| Name | Direction | Description |
|---|---|---|
bv1 | in | First bitvector |
bv2 | in | Second bitvector |
match | in | Score for matching bits |
mismatch | in | Score for mismatching bits |
Usage example (from documentation)
int score = BitVecAlignmentScore(&seq1, &seq2, 2, -1);
Usage example (Cross-references)
- In
BitVec.c:1343:
}
int BitVecAlignmentScore(BitVec *bv1, BitVec *bv2, int match, int mismatch) {
ValidateBitVec(bv1);
ValidateBitVec(bv2);
// Test BitVecAlignmentScore basic functionality
bool test_bitvec_alignment_score_basic(void) {
WriteFmt("Testing BitVecAlignmentScore basic functionality\n");
BitVec bv1 = BitVecInit();
BitVecPush(&bv2, true);
int score = BitVecAlignmentScore(&bv1, &bv2, 2, -1);
result = result && (score == 6); // 3 matches * 2
BitVecPush(&bv2, false);
score = BitVecAlignmentScore(&bv1, &bv2, 2, -1);
result = result && (score == -3); // 3 mismatches * -1
// Test BitVecAlignmentScore edge cases
bool test_bitvec_alignment_score_edge_cases(void) {
WriteFmt("Testing BitVecAlignmentScore edge cases\n");
BitVec bv1 = BitVecInit();
// Test empty bitvectors
int score = BitVecAlignmentScore(&bv1, &bv2, 1, -1);
result = result && (score == 0);
BitVecPush(&bv2, false);
score = BitVecAlignmentScore(&bv1, &bv2, 1, -1);
result = result && (score == 2); // 2 matches
double correlation = BitVecCorrelation(&bv1, &bv2);
double entropy1 = BitVecEntropy(&bv1);
int align_score = BitVecAlignmentScore(&bv1, &bv2, 1, -1);
u64 best_align = BitVecBestAlignment(&bv1, &bv2);
bool test_bitvec_alignment_score_null_bv1(void) {
WriteFmt("Testing BitVecAlignmentScore(NULL, bv2, 1, -1) - should fatal\n");
BitVec bv2 = BitVecInit();
BitVecPush(&bv2, true);
BitVec bv2 = BitVecInit();
BitVecPush(&bv2, true);
BitVecAlignmentScore(NULL, &bv2, 1, -1);
BitVecDeinit(&bv2);
return true;
bool test_bitvec_alignment_score_null_bv2(void) {
WriteFmt("Testing BitVecAlignmentScore(bv1, NULL, 1, -1) - should fatal\n");
BitVec bv1 = BitVecInit();
BitVecPush(&bv1, true);
BitVec bv1 = BitVecInit();
BitVecPush(&bv1, true);
BitVecAlignmentScore(&bv1, NULL, 1, -1);
BitVecDeinit(&bv1);
return true;