These are some tools to help with working with RNA structure. The tools are split into three major groups, primary, secondary and tertiary. For details on each package please see the documentation. Below is a listing of the general capabilities of this package.
This consists of wrappers around Mfold, UNAFold, and RNAalifold.
This consists of some tools to parse secondary structure annotations into loops. It can read dot bracket, BPseq and connect formats. This parsing produces a data structure that can be used.
We also provide a parser for 2D diagrams produced by RNAplot. This parser takes the postscript file generated by RNAplot and produces a parsed secondary structure with information about drawing coordinates.
This is a wrapper around PDB's PDBx package for reading mmCIF files. This provides a nicer more pythonic interface as well as some utilities for extracting things from the data.
See examples/.
Blake Sweeney [email protected]