Commits · a6f239367101ec5cd276c3018c3d27952d995359 · Martin Larralde / LightMotif · GitLab

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Sep 02, 2024
- Add type annotations for `lightmotif.lib` Python module · a6f23936
  Martin Larralde authored 6 months ago
  
  a6f23936
Sep 01, 2024
- Add `Motif` subclasss to store metadata from JASPAR or TRANSFAC records · ffe6ac09
  Martin Larralde authored 6 months ago
  
  ffe6ac09
Aug 31, 2024
- Fix `Scanner` in `lightmotif-py` to avoid copying data · cbc2ca63
  Martin Larralde authored 6 months ago
  
  cbc2ca63
Aug 30, 2024
- Make `lightmotif.load` support file-like objects and add unit tests for various formats · f218b080
  Martin Larralde authored 6 months ago
  
  f218b080
- Add `Motif.name` property to store the name of a motif in `lightmotif-py` · cd460572
  Martin Larralde authored 6 months ago
  
  cd460572
- Add `load` function to `lightmotif-py` to support loading several `Motif` from a file · 1e43a171
  Martin Larralde authored 6 months ago
  
  1e43a171
- Implement buffer protocol for `ScoringMatrix` · 6b551229
  Martin Larralde authored 6 months ago
  
  6b551229
- Wrap the new DNA scanning algorithm in the `lightmotif-py` library · 5c36d18f
  Martin Larralde authored 6 months ago
  
  5c36d18f
Aug 29, 2024
- Add support for protein alphabets in `lightmotif-py` module · f1744c1f
  Martin Larralde authored 6 months ago
  
  f1744c1f
Jun 28, 2024
- Release v0.8.0 · b11557fa
  Martin Larralde authored 8 months ago
  
  View commits for tag v0.8.0 v0.8.0
  
  b11557fa
- Bump `pyo3` dependency to `v0.22` · e0f3530d
  Martin Larralde authored 8 months ago
  
  e0f3530d
Jun 20, 2024
- Make `StripedScores` generic over the score type · d14173a9
  Martin Larralde authored 9 months ago
  
  d14173a9
Jun 17, 2024
- Release v0.7.3 · 725f3bab
  Martin Larralde authored 9 months ago
  
  View commits for tag v0.7.3 v0.7.3
  
  725f3bab
Jun 14, 2024
- Release v0.7.2 · 46065881
  Martin Larralde authored 9 months ago
  
  View commits for tag v0.7.2 v0.7.2
  
  46065881
- Implement `__getitem__` for row access for matrices of `lightmotif-py` · d44e7b0e
  Martin Larralde authored 9 months ago
  
  d44e7b0e
- Allow changing log base in `WeightMatrix.log_odds` method · f7e791de
  Martin Larralde authored 9 months ago
  
  f7e791de
- Add `__len__` implementation for all matrix classes of `lightmotif-py` · 7b58f7e9
  Martin Larralde authored 9 months ago
  
  7b58f7e9
- Release v0.7.1 · d3cce922
  Martin Larralde authored 9 months ago
  
  View commits for tag v0.7.1 v0.7.1
  
  d3cce922
- Release v0.7.0 · d8e791db
  Martin Larralde authored 9 months ago
  
  View commits for tag v0.7.0 v0.7.0
  
  d8e791db
- Replace direct attribute access with getters in `StripedSequence` · 85263f04
  Martin Larralde authored 9 months ago
  
  85263f04
Jun 13, 2024
- Reorganize code for striped scores · 32508c48
  Martin Larralde authored 9 months ago
  
  32508c48
- Use a dedicated type for `ScoringMatrix.score` and refactor code · 840959f7
  Martin Larralde authored 9 months ago
  
  840959f7
- Revert book-keeping attributes used in `StripedScores` · 4d3145ff
  Martin Larralde authored 9 months ago
  
  4d3145ff
- Add method to build the reverse-complement of a PSSM · 87b63939
  Martin Larralde authored 9 months ago
  
  87b63939
- Implement back `StripedScores.__len__` and `StripedScores.__getitem__` · 984b5ea4
  Martin Larralde authored 9 months ago
  
  984b5ea4
Mar 11, 2024
- Make `StripedScores::sequence_index` take a `MatrixCoordinates` argument · 2f1eaa5d
  Martin Larralde authored 1 year ago
  
  2f1eaa5d
- Fix tests and benchmarks to use the new `Maximum` API · 4cd84026
  Martin Larralde authored 1 year ago
  
  4cd84026
Mar 10, 2024
- Remove platform-specific code for thresholding scores · 28adbffe
  Martin Larralde authored 1 year ago
  
  28adbffe
Mar 09, 2024
- Update `generic-array` dependency to `v1.0` · 8d805a4a
  Martin Larralde authored 1 year ago
  
  8d805a4a
Mar 08, 2024
- Streamline use of pipelined functions in `lightmotif-py` · cbd1dfbc
  Martin Larralde authored 1 year ago
  
  cbd1dfbc
- Fix code issues with `cargo clippy` · 411c96d6
  Martin Larralde authored 1 year ago
  
  411c96d6
- Add constructor for Python `ScoringMatrix` class · f7862877
  Martin Larralde authored 1 year ago
  
  f7862877
- Make sure `lightmotif-py` computes the right p-values · 093889bc
  Martin Larralde authored 1 year ago
  
  093889bc
- Clear dual-licensing of the `lightmotif-py` depending on the TFM-PVALUE dependency · ec8d85ea
  Martin Larralde authored 1 year ago
  
  ec8d85ea
- Add support for optional TFMPvalue interface in Python bindings · e85eb753
  Martin Larralde authored 1 year ago
  
  e85eb753
Dec 13, 2023
- Release v0.6.0 · 80ed550b
  Martin Larralde authored 1 year ago
  
  View commits for tag v0.6.0 v0.6.0
  
  80ed550b
Dec 11, 2023
- Add new `lightmotif-io` crate to implement multiple parser formats · 0c4f035b
  Martin Larralde authored 1 year ago
  
  0c4f035b
Nov 02, 2023
- Add `pymemesuite` to benchmark in Python `README.md` [ci skip] · 55f18b9d
  Martin Larralde authored 1 year ago
  
  55f18b9d
Aug 31, 2023
- Release v0.5.1 · 4a642c6a
  Martin Larralde authored 1 year ago
  
  View commits for tag v0.5.1 v0.5.1
  
  4a642c6a
- Release v0.5.0 · 94ac933a
  Martin Larralde authored 1 year ago
  
  View commits for tag v0.5.0 v0.5.0
  
  94ac933a