From d9514db017cbff35c6485965ff3be995964ddf52 Mon Sep 17 00:00:00 2001 From: tony-kuo Date: Mon, 11 Nov 2024 17:15:02 -0800 Subject: [PATCH] update --- NEWS.rst | 26 +++++++++++++++----------- 1 file changed, 15 insertions(+), 11 deletions(-) diff --git a/NEWS.rst b/NEWS.rst index a3e09a3..a718781 100644 --- a/NEWS.rst +++ b/NEWS.rst @@ -1,16 +1,18 @@ Release Notes -=============================================================================== +================================================================================ -Version 0.3.0 pre-release notes: September 11, 2024 -------------------------------------------------------------------------------- +Version 0.3.0 pre-release notes: November 11, 2024 +-------------------------------------------------------------------------------- General: - + Various changes to utility functions to improve efficiency. + + Various changes to utility functions to improve efficiency and flexibility. + + Simplification of many class constructor parameters. + Tutorials have been updated with new download links and analyses. Exhaustive queries: - + Functionality to perform exhaustive queries has been added as the new - method ``cell_query.search_exhaustive``. + + Functionality to perform exhaustive queries has been added as new methods + ``cell_query.search_exhaustive``, ``cell_query.search_centroid_exhaustive``, + and ``cell_query.search_cluster_centroids_exhaustive``. + The kNN query method ``cell_query.search`` has been renamed to ``cell_query.search_nearest``. @@ -28,16 +30,18 @@ Query result filtering and interpretation: using the ``metadata_filter`` argument to ``cell_query.search_exhaustive``. + Results from exhaustive queries can be constrained by distance-to-query using the ``max_dist`` argument to ``cell_query.search_exhaustive``. + + The mappings in ``utils.clean_tissues`` and ``utils.clean_diseases`` have + been expanded. Optimizations to training: - + The ASW and NMSE training evaluation metrics were added to multiple - methods. + + The ASW and NMSE training evaluation metrics were added. + The ``triplet_selector.get_asw`` method was added to calculate ASW. + + The ``ontologies.find_most_viable_parent`` method was added to help coarse + grain cell type ontology labels. + Optimized sampling weights of study and cell type. - Version 0.2.0: March 22, 2024 -------------------------------------------------------------------------------- +-------------------------------------------------------------------------------- + Updated version requirements for multiple dependencies and removed the ``pegasuspy`` dependency. @@ -49,6 +53,6 @@ Version 0.2.0: March 22, 2024 Version 0.1.0: August 13, 2023 -------------------------------------------------------------------------------- +-------------------------------------------------------------------------------- + Initial public release.