Changelog

1.3.6

further updated scanpy logging compatibility tweak (F. Rost)

1.3.5

update logging to match scanpy 1.4.4 standards

1.3.4

rework .obsm['X_pca'] check to be compatible with new structure (I. Virshup)

1.3.3

add MANIFEST.in for conda purposes (J. Preußner)

1.3.2

run trimming by default at 10 times the neighbour count for each cell
remove scanpy dependency from bbknn_pca_matrix; rework setup dependencies as a result
removal of save_knn option
creation of diagnostic extract_cell_connectivity function for plotting connectivities

1.3.1

metric sanity check typo fix

1.3.0

optional faiss support
default swap to annoy neighbours with angular as the metric, add annoy's n_trees parameter
removal of distance scaling
removal of n_jobs parameter - automatically parallelise cKDTree
metric sanity checks

1.2.0

bbknn_pca_matrix function
code refactoring

1.1.0

annoy support

1.0.0

initial release