Eric Coissac 49225030ca Implement core clustering logic and scoring features ...

This update introduces the core clustering algorithm, including parallel execution, dynamic block sizing, and SIMD-accelerated scoring methods. It also adds robust sequence preparation, k-mer analysis, and comprehensive test data fixtures for validation.

2026-11-03 09:32:40 +11:00

..

alignment.go

Adds the --silent-warning options to the obitools commands and removes the --pared-with option from some of the obitols commands.

2025-03-25 16:44:46 +01:00

backtracking.go

EndGapFree alignments

2024-09-24 15:52:12 +02:00

dnamatrix.go

Adds the --silent-warning options to the obitools commands and removes the --pared-with option from some of the obitols commands.

2025-03-25 16:44:46 +01:00

fastlcs_bench_test.go

Implement Banded LCS calculation with scalar and SIMD support

2026-11-03 09:28:46 +11:00

fastlcs.go

add the --min-sample-count option to obiclean.

2025-02-24 08:48:31 +01:00

fastlcsegf.go

Implement Banded LCS calculation with scalar and SIMD support

2026-11-03 09:28:46 +11:00

fourbitsencode.go

Change path of the obitools pkg

2023-11-29 12:14:37 +01:00

is_d0_or_d1.go

Correction on obiformat of bug leading to partial parsing and add godocs

2024-05-07 10:54:12 +02:00

lcsband_nosimd.go

Implement core clustering logic and scoring features

2026-11-03 09:32:40 +11:00

lcsband_scalar.go

Implement Banded LCS calculation with scalar and SIMD support

2026-11-03 09:28:46 +11:00

lcsband_simd.go

Implement Banded LCS calculation with scalar and SIMD support

2026-11-03 09:28:46 +11:00

lcsband_test.go

Implement core clustering logic and scoring features

2026-11-03 09:32:40 +11:00

lcsband.go

Implement core clustering logic and scoring features

2026-11-03 09:32:40 +11:00

lcsmin.go

Implement core clustering logic and scoring features

2026-11-03 09:32:40 +11:00

lcsscore_simd.go

Implement core clustering logic and scoring features

2026-11-03 09:32:40 +11:00

locatepattern_test.go

fix: validate inputs and fix coordinate offsets in pattern matching

2026-08-19 17:25:44 +02:00

locatepattern.go

fix: validate inputs and fix coordinate offsets in pattern matching

2026-08-19 17:25:44 +02:00

pairedendalign.go

Changes to be committed:

2025-02-23 17:37:56 +01:00

readalign.go

Adds the --silent-warning options to the obitools commands and removes the --pared-with option from some of the obitols commands.

2025-03-25 16:44:46 +01:00