CEMBA snATAC-seq clustering using SnapATAC2 Installation of SnapATAC2 # Install a mamba enviroment named sa2 with python=3.10 or newer version # Then mamba activate sa2 && mamba install -c conda-forge -c bioconda snakemake \ && mamba install -c anaconda cmake curl --proto '=https' --tlsv1.2 -sSf https://sh.rustup.rs | sh \ && rustup default nightly git clone https://github.com/kaizhang/SnapATAC2.git ~/softwares/SnapATAC2 \ && cd ~/softwares/SnapATAC2/snapatac2-python && pip install . # current numba depends on numpy=1.24 pip install numpy==1.24 && pip install ipython pyprojroot matplotlib NOTE save L1-level QC, doublet removal and clustering result Under ps-renlab, we perform clustering. How to run scala file enter post_script run: sbt then run: run, this will run Hello in sa2_dlt2_preprareL2.scala