use conda to solve conflicts in installation
pip installed packages can cause conflicts (at least on my device, numba conflicted with numpy version)
use conda or mamba can solve package dependency better.
Thank you for your suggestion. Conda/mamba is great for solving package dependencies. However, the line "pip install ." is what installs the Geneformer package, along with any dependencies that are not already installed. By replacing "pip install ." with "conda install loompy numpy datasets transformers", the dependencies will be installed with conda, but Geneformer will not be installed. Users can always install dependencies with conda/mamba first, and then pip install Geneformer. Some users may already have these dependencies installed, in which case "pip install ." will only install Geneformer and not the dependencies.