Pegasus for Single Cell Analysis

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Pegasus is a tool for analyzing transcriptomes of millions of single cells. It is a command line tool, a python package and a base for Cloud-based analysis workflows.

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Release Highlights in Current Stable

1.8.1 August 23, 2023

  • Bug fix in cell marker JSON files for infer_cell_types function.

1.8.0 July 21, 2023

New Feature and Improvement

  • Updata human_immune and human_lung marker sets.

  • Add mouse_liver marker set.

  • Add split_one_cluster function to subcluster one cluster into a specified number of subclusters.

  • Update neighbors function to set use_cache=False by default, and adjust K to min(K, int(sqrt(n_samples))). [PR 272]

  • In infer_doublets function, argument manual_correction now accepts a float number threshold specified by users for cut-off. [PR 275]

Bug Fix

  • Fix divide by zero issue in integrative_nmf function. [PR 258]

  • Compatibility with Pandas v2.0. [PR 261]

  • Allow infer_doublets to use any count matrix with key name specified by users. [PR 268 Thanks to Donghoon Lee]