Clustering 3K PBMCs with Scanpy - Galaxy Training Network
Dec 19, 2019 · Training material and practicals for all kinds of single cell analysis (particularly scRNA-seq!).
Filter, plot and explore single-cell RNA-seq data with Scanpy (Python)
Aug 25, 2023 · Training material and practicals for all kinds of single cell analysis (particularly scRNA-seq!).
Inferring single cell trajectories with Scanpy
Dec 8, 2023 · Training material and practicals for all kinds of single cell analysis (particularly scRNA-seq!).
Inferring single cell trajectories with Scanpy (Python)
Apr 7, 2021 · Training material and practicals for all kinds of single cell analysis (particularly scRNA-seq!).
Analysis of plant scRNA-Seq Data with Scanpy
Apr 8, 2021 · Training material and practicals for all kinds of single cell analysis (particularly scRNA-seq!).
Newest 'scanpy' Questions - Stack Overflow
Jun 19, 2025 · I'm using scanpy/python to analyze some single-cell RNA-seq data. I want to use sc.pl.umap(show= False) in order to make ax objects, edit them, and combine them accordingly.
Hands-on: Scanpy Parameter Iterator / Scanpy Parameter Iterator ...
Jul 19, 2023 · Number of neighbours to derive kNN graph (for Scanpy ComputeGraph) We will now use Scanpy ComputeGraph to derive the k-nearest neighbour (kNN) graph from our PCA values. We can …
How to plot proportion of cells in each cluster with scanpy?
Sep 22, 2023 · I am analyzing single cell data with scanpy. I have using leiden to cluster my samples. I would like to figure out how many cells are in each cluster and plot the proportion of cells for each …
Single Cell / Removing the effects of the cell cycle / Hands-on ...
Jan 25, 2023 · Comment: Other Scanpy and Seurat tutorials This tutorial is based on the Scanpy cell cycle regression tutorial (Cittaro 2018), which was itself based on the Seurat vignette addressing the …
scanpy - Python importing package as if it is a module - Stack Overflow
Dec 24, 2021 · This is the result of those installation instructions. (Separately, I've also followed the installation instructions on the "scanpy" website but those didn't seem to work.) I'm also running the …