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Martin Larralde
LightMotif
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ab2ee8f90363785720e822cb66bc9995ea7739a9
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v0.9.1
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Fix `Scanner` in `lightmotif-py` to avoid copying data
Update Rust version used to build documentation [ci skip]
Make `lightmotif.load` support file-like objects and add unit tests for various formats
Fix TRANSFAC parser unwrapping potential error in `lightmotif-io`
Add `Motif.name` property to store the name of a motif in `lightmotif-py`
Add `load` function to `lightmotif-py` to support loading several `Motif` from a file
Implement buffer protocol for `ScoringMatrix`
Wrap the new DNA scanning algorithm in the `lightmotif-py` library
Fix issue with parsing of floating-point numbers in JASPAR parser
Add support for protein alphabets in `lightmotif-py` module
Fix outdated key type in `package.yml` Actions workflow [ci skip]
Release v0.8.0
v0.8.0
v0.8.0
Bump `pyo3` dependency to `v0.22`
Compile `lightmotif` without `rand` by default
Cache Q-values buffer in `TfmPvalue` structure
Add benchmark for the `Maximum::max` pipeline operation
Update `Avx2::argmax_u8` to use a single comparison
Add dedicated `Maximum::<f32, _>::max` implementation for AVX2
Add naive baseline implementation to `dna.rs` benchmark in `lightmotif-bench`
Fix `u8` benches speed in `threshold.rs` benchmark
Add dedicated `Maximum::<u8, _>::max` implementation for AVX2
Reorganize all benchmarks in `lightmotif` crate
First check if block maximum is high enough before running `Pipeline::threshold` in `Scanner`
Refactor `dna.rs` code in `lightmotif-bench`
Add tests to ensure `Maximum::argmax` works as expected for all implementations
Fix SSE2 and AVX2 implementations of `argmax` not returning the last index
Clean code in NEON platform implementation
Add tests for NEON implementation of `Score<u8>`
Rename unit tests in `lightmotif` for consistency
Fix unused imports in `lightmotif::pli` and reorganize unit tests
Add SSE2 implementation of the `Encode` pipeline operation
Fix AVX2 implementation of `Maximum::argmax`
Add unit tests for `lightmotif::scan::Scanner`
Implement `Score<u8, Dna>` for the NEON platform
Fix issues with NEON code in pipeline and tests
Reorganise code for benchmarks
Fix build of platform specific code on Arm platforms
Implement `Score<u8, Dna>` for the AVX2 platform
Reorganize tests in `lightmotif` crate
Reorganize tests for `Stripe` implementations
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