v0.5.0

Added

lightmotif

• Arm NEON implementation of Threshold and Encode.
• Alphabet::as_str method to get the symbols of an alphabet as a string.
• DenseMatrix::fill method to fill a dense matrix with a constant value.
• Convenience getters and conversion traits to StripedSequence.
• Stripe trait to implement striping of an encoded sequence with SIMD.
• Dynamic dispatched pipeline selecting the best implementation as runtime.
• PartialEq implementation for EncodedSequence.

lightmotif-py

• Buffer and copy protocols for StripedSequence and EncodedSequence.
• Indexing support to EncodedSequence.

lightmotif-tfmpvalue

• Convenience methods to access the wrapped ScoringMatrix reference in TfmPvalue.

Changed

lightmotif

• Encode::encode now returns an EncodedSequence instead of a raw Vec.
• Performance improvements for Encode for AVX2 and NEON by removing non-const function calls in loop.
• Performance improvements for Threshold by skipping the index buffer initialization.
• Avoid buffer initialization when allocating a new buffer in EncodedSequence::encode.
• Require Symbol implementors to implement Eq.

lightmotif-py

• Use the dynamic dispatch pipeline to run vectorized operations.

lightmotif-tfmpvalue

• Make TfmPvalue generic over the type of reference to the wrapped ScoringMatrix.

Fixed

lightmotif

• Debug implementation of DenseMatrix crashing when attempting to render the padding bytes.