Man pages for Bios2cor
From Biological Sequences and Simulations to Correlation Analysis
| angle2rotamer | Converts dihedral angles to rotamers |
| angles.plot | plots the time evolution of the dihedral angles in top pairs |
| Bios2cor-package | Correlation/covariation Analysis in Biological Sequences and... |
| centered_pca | Performs principal component analysis of a... |
| delta_filter | Creation of an entropy/dynamic score delta filter for each... |
| dynamic_circular | Circular correlation |
| dynamic_entropy | Variability score |
| dynamic_mi | Mutual Information (MI) function applied to rotamers in... |
| dynamic_mip | Mutual Information Product (MIP) function applied to rotamers... |
| dynamic_omes | OMES (Observed minus Expected Squared) function applied to... |
| dynamic_structure | Creates the data structure for the analysis of side chain... |
| elsc | Explicit Likelihood of Subset Covariation (ELSC) function |
| entropy | Entropy score |
| import.fasta | Reads a file in FASTA format |
| import.msf | Reads a multiple sequence alignment file in MSF format |
| mcbasc | McBASC (McLachlan Based Substitution Correlation) function |
| mi | Mutual Information (MI) function |
| mip | Mutual Information product (MIP) function |
| network.plot | Creates network structure of top elements |
| omes | OMES (Observed minus Expected Squared) function |
| pca_2d | PCA projection on two dimensions |
| pca_screeplot | Creates PCA screeplot |
| random.msa | Random Alignment |
| scores.boxplot | Creates boxplots of correlation/covariation scores |
| scores_entropy.plot | Scores versus entropy graph |
| top_pairs_analysis | Calculates the number of contacts for each element of the top... |
| write.entropy | Writes and displays entropy values |
| write.pca | Creates a file of coordinates in PCA space |
| write.pca.pdb | PDB and PML file creation for 3D representation of PCA... |
| write.scores | Creates a correlation/covariation ouput file |
| xyz2torsion | Convert Cartesian Coordinates to Torsion Angles |
