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Published November 8, 2024 | Version v0.11.0
Software Open

loosolab/SC-Framework: Version 0.11.0

Creators

  • 1. Bioinformatics Core Unit

Description

0.11.0 (08-11-24)

  • fix pl.embedding.plot_pca_variance() does not select all PCs using thr 100% (#309)
  • feature_per_group remove empty axis (#312)
  • fix get_rank_genes_tables return less than n_genes for filtered ranking
  • fix _search_dim_red_parameters "ValueError: 'left' is not a valid value for loc"
  • fix gseapy, louvain install outside of the docker image (#310)
  • implemented plotting.embedding.agg_feature_embedding
  • cleanup installation/ dependencies
  • CI: Revert to installing mampok from main
  • implement bgcolor cell-selection
  • update readme
  • add a bar plot to predict_cell_cycle (#301)

Changes to notebooks

  • add agg_feature_embedding to the group_marker notebook
  • fix RNA:02 zebrafish gender suggestion (#311)
  • revise 03_normalization_batch_correction notebook
  • prepare_for_cellxgene: Add auth parameter
  • use the bgcolor cell-selection in all notebooks

Files

loosolab/SC-Framework-v0.11.0.zip

Files (49.8 MB)

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Additional details

Related works

Is supplement to
Software: https://github.com/loosolab/SC-Framework/tree/v0.11.0 (URL)