Tom Wir's repositories
SimRNA_example_files
SimRNA is a computational method that performs a Monte Carlo simulation of a system composed of one or several chains of ribonucleic acid (RNA). This repository contains data for SimRNA Replica Exchange Monte Carlo (REMC) simulations. The simulations were performed to model the three dimensional structure of 3D structure of adenine riboswitch aptamer domain (PDB ID: 5SWE).
M2seq_mod
Analysis of 2D signal in mutate-and-map sequencing data
PDB_Probing_coloring
Python script for chaniging b_factor values in a PDB file to values representing RNA chemical probing reactivies. The file with modified b_factor can be used to visualize the reactivities in structure visualization tool such as PyMOL or Chimera.
R2DT
Visualise RNA secondary structure in consistent, reproducible and recognisable layouts
rna-pdb-tools
🔧rna-pdb-tools: a toolbox to analyze structures and simulations of RNA - docs @ http://rna-pdb-tools.rtfd.io & tour @ http://mmagnus.github.io/rna-pdb-tools/#/