imp_analysis_tutorial
This tutorial demonstrates the analysis of integrative modeling results using the Integrative Modeling Platform (IMP).
./rnapolii - Improved analysis routine for the PMI modeling tutorial of the RNA Polymerase III stalk.
Citations: In review
Installation and Dependencies
Getting the tutorial code and data
This tutorial can be downloaded from this page or the command line using
git clone github.com/salilab/imp_analysis_tutorial
Submodules must be downloaded by navigating to the tutorial main directory and running
git submodule init
git submodule update
Installing IMP and dependencies
The tutorial requires IMP v2.13 (April 2020) or later to run correctly.
---Using anaconda---
The simplest way to install and run IMP and this tutorial is using anaconda.
Once installed, IMP and required dependencies can be installed using the following commands
conda install -c salilab imp pyrmsd
conda install numpy scikit-learn matplotlib pandas
conda install -c conda-forge hdbscan
---Using stand-alone IMP---
IMP binaries or source code are available for download.
Python 3.X is recommended to run IMP. Dependencies can be installed via pip:
pip install numpy scikit-learn matplotlib pandas hdbscan
A modified version of pyRMSD must be installed as well:
Running the tutorial
Navigate to ./rnapolii and continue from the rnapolii README