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NSMB Tutorials are now available under the 'tutorials' folder as RMarkdown files. The HTML workflows for protein-protein interactions and protein-RNA interactions are available via the links provided.

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This package is designed to analyze and visualize crosslinking (XL) data from multiple sources (mainly XL-MS and RBDmap).

Analysis

  • Differential analysis

  • Crosslinking frequency

  • Creation of PDB files for missing peptides

  • Mutation and Uniprot Integration (coming soon!)

XL-MS

  • Control distances for PDB structures

RBDMap

  • Frequency of RNA-likened amino acids

Visualization

  • Distance histograms

  • Amino acid frequency heatmaps

  • 2D: xiNET output

  • 3D: PyMOL output

Installation

To download the functions with documentation:

library('devtools')
install_github("egmg726/crisscrosslinker")

Note

This is still the beta release of the package/documentation so please contact me if you come across any issues!

About

CrissCrossLinker is a package for analyzing protein-protein and protein-RNA interactions

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