Eric Coissac f76e7f03c6 Feature: Introduce k-mer distance and SIMD LCS logic ...

Introduces k-mer distance structures and SIMD implementation for LCS simulation.

Adds support for concurrent, read-only k-mer partners, implements data preparation for SIMD alignment, and adds comprehensive testing and benchmarking capabilities.

2026-11-03 09:24:00 +11:00

..

obialign

fix: validate inputs and fix coordinate offsets in pattern matching

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

obiapat

fix: validate inputs and fix coordinate offsets in pattern matching

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

obichunk

Fix classifier cloning and reset in chunk processing

2026-02-08 15:52:25 +01:00

obicorazick

Add progress bar configuration and conditional display

2026-02-08 16:14:02 +01:00

obidefault

refactor: replace single batch size with min/max bounds and memory limits

2026-03-13 15:07:35 +01:00

obidist

Add Jaccard distance and similarity computations for KmerSet and KmerSetGroup

2026-02-05 17:39:23 +01:00

obiformats

refactor: improve FASTQ error messages with explicit filenames

2026-08-19 16:47:36 +02:00

obifp

fix: update uint128 test expectations and improve log formatting

2026-08-19 17:33:57 +02:00

obigraph

Add obiminion first version

2024-05-14 08:16:12 +02:00

obiiter

Refactor batch iterator filtering and update project configuration

2026-11-03 09:22:46 +11:00

obiitercsv

break the import cyccle

2025-01-27 17:23:07 +01:00

obikmer

Feature: Introduce k-mer distance and SIMD LCS logic

2026-11-03 09:24:00 +11:00

obilog

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

obilua

chore: bump version to 4.4.39

2026-04-14 14:48:29 +02:00

obingslibrary

fix: respect config defaults when --allowed-mismatches is unset

2026-08-19 16:40:48 +02:00

obioptions

Release 4.5.0

2026-08-19 17:35:06 +02:00

obiphylo

Changes to be committed:

2025-06-04 09:48:10 +02:00

obiseq

fix: correct duplicated typos in GVal function names

2026-06-02 15:00:48 +02:00

obistats

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

obisuffix

Swich to the system min and max functions and remove the version from obiutils

2024-05-30 08:27:24 +02:00

obitable

many changes ;-)

2023-12-05 15:28:29 +01:00

obitax

feat(obiconvert): add --raw-taxid option and refactor taxID formatting

2026-04-30 16:57:38 +02:00

obitools

Implement k-mer distance metrics and constrained generation

2026-11-03 09:23:37 +11:00

obiutils

feat: add JSON input support for biological sequences

2026-07-03 10:16:55 +02:00