Related to https://github.com/CollinsLabBioComp/snakemake-binomial_regression/blob/dd095cdd6e3f0b75413246ca2148e7085d356190/envs/environment.yml#L22 And https://github.com/CollinsLabBioComp/snakemake-binomial_regression/blob/dd095cdd6e3f0b75413246ca2148e7085d356190/envs/environment_setup.sh#L10 From >=0.2.0 onwards, anndataR requires rhdf5 instead of hdf5r to read/write H5AD files.