Gert Hulselmans

icon company @aertslab icon location Bioinformatician in Laboratory of Computational Biology (part of KU Leuven Center for Human Genetics and the VIB Center for Brain and Disease Research.).

Results 446 comments of Gert Hulselmans

PNG optimizer strategies from TruePNG

@andrews05 Here is the image: ![factorbook__ENCSR344SBD_AGAGAGAGAGAGAGA_2 job4](https://github.com/shssoichiro/oxipng/assets/1299177/35a20905-0192-4ef0-bcea-6a19f7794a35)

Installation Error

Try to use pySCENIC instead of SCENIC (deprecated). Container versions are available: https://pyscenic.readthedocs.io/en/latest/installation.html#docker-podman-and-singularity-apptainer-images

could not find function "AUCell_createViewerApp"

`rbokeh` was removed from BioConductor and `AUCell` was not allowed to depend on it anymore, so the `plotTsne_AUCellApp` viewer was removed too: https://github.com/aertslab/AUCell/issues/42

Scenic on HPC

Try to use pySCENIC instead of SCENIC (deprecated). Container versions are available: https://pyscenic.readthedocs.io/en/latest/installation.html#docker-podman-and-singularity-apptainer-images

Could not initialize SCENIC

Try to use pySCENIC instead of SCENIC (deprecated). Container versions are available: https://pyscenic.readthedocs.io/en/latest/installation.html#docker-podman-and-singularity-apptainer-images

Error when running run_cgs_models_mallet

Can you try with a different Java version? e.g. `java 1.8.x`

linux installation error

You need to have C++ compiler installed: e.g. `g++`.

Numba ConstantInferenceError in find_diff_features [BUG]

Can you install `numba >= 0.57.0`?

Numba ConstantInferenceError in find_diff_features [BUG]

@josephineyates Does updating `pynndescent` help? https://github.com/aertslab/pycisTopic/issues/92#issuecomment-1735438244

Numba ConstantInferenceError in find_diff_features [BUG]

You need `numba >= 0.57`.