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!).
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!).
Inferring single cell trajectories with Scanpy (Python)
Apr 7, 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 …
ModuleNotFoundError: No module named 'scanpy' (python)
Dec 9, 2021 · I've installed scanpy, and when I check with pip show it's there: C:\Users\plain>pip show scanpy Name: scanpy Version: 1.8.2 Summary: Single-Cell Analysis in Python.
python - ImportError when importing scanpy on a Jupyter notebook …
Oct 31, 2023 · I had the same issue; I originally used following in Jupyter: !pip install scanpy After receiving the error, uninstalled scanpy, using: !python -m pip uninstall scanpy --yes And restarted the …