daslab_tools

Tools, mainly for cluster usage, for Das lab at Stanford

The rna_tools was developed initially in Rosetta, but is now maintained here.

Getting started

For the python tools, add to your ~/.bashrc:

source ~/src/daslab_tools/rna_tools/INSTALL 
export PATH=$PATH:$HOME/src/daslab_tools
export PYTHONPATH=$PYTHONPATH:$HOME/src/daslab_tools

and source ~/.bashrc.

TODO

• Update all tools to use argparse (which was not available when many of these tools were written) to more robustly handle arguments.
• Use an LLM to document all scripts.
• Provide some examples.
• Reorganize into directories that make sense, esp. the new CIF tools.
• Make all the pdb_tools compatible with modern CIF format and gzip.
• Fix the INSTALL script to go into subdirectories of the main directory; replace with something more concise.
• Fill out documentation in this README.