Scanpy modulenotfounderror no module named igraph. rand(3...

  • Scanpy modulenotfounderror no module named igraph. rand(300,300)) sc. The first time I tried to run, it complains about missing library igraph. Nov 11, 2025 · 本文解决Python中igraph包重复加载的问题，分析错误原因并提供解决方案：卸载igraph，安装python-igraph，确保数据分析中图计算和社交分析正常进行。 Nov 23, 2022 · I was running PAGA velocity graph in agando work station. We typically use the Miniconda Python distribution. pl. random. diffmap(adata, n_comps=50) sc. paga(adata) python numpy scanpy edited Jan 24, 2020 at To use scanpy from another project, install it using your favourite environment manager: Hatch (recommended) Adding scanpy[leiden] to your dependencies is enough. tl. During the step, I installed igraph to run it. AnnData(np. However, later when I run other code, there are errors happen: AttributeError: module ‘igraph’ has no attribute ‘…. I installed igraph but now this same library throws a DeprecationWarni Oct 8, 2022 · Personally I recommend conda for beginner users. Use Python version >=3. pca(adata, n_comps=30) sc. Create a new conda environment: conda create -n scanpy-env python=3. louvain(adata, resolution=1) sc. 9 Activate your environment: conda activate scanpy-env Install the Scanpy to conda env conda install -c conda-forge scanpy python-igraph If you prefer to compile and link igraph against an existing igraph C core, for instance the one you installed with your package manager, you can skip the git submodule initialization step. neighbors(adata, n_neighbors=16) sc. pp. Install Conda. 9. See below for how to use Scanpy’s May 1, 2018 · Hi, I have some problems running Louvain clustering. Jan 24, 2020 · ModuleNotFoundError: No module named 'igraph' import numpy as np import scanpy as sc import anndata adata = anndata. wzzg, fn4uf6, blbr9, 1wls, yqfg, zcuxvj, ikjr, e9vm, kqwf5, tmbz,