Pegasus for Single Cell Analysis¶
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.
Release Highlights in Current Stable¶
1.7.0 July 5, 2022¶
New Features
Add pegasus.elbowplot function to generate elbowplot, with an automated suggestion on number of PCs to be selected based on random matrix theory ([Johnstone 2001] and [Shekhar 2022]).
Add arcsinh_transform function for arcsinh transformation on the count matrix.
API Changes
Function
nearest_neighbors
has additional argumentn_comps
to allow use part of the components from the source embedding for calculating the nearest neighbor graph.Add
n_comps
argument forrun_harmony
,tsne
,umap
, andfle
(argument name isrep_ncomps
) functions to allow select part of the components from the source embedding.