Chaos Game Representation for Phylogenetic Analysis
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Documentation for package ‘CGRphylo2’ version 0.99.2
Help Pages
| calculateDistanceMatrix | Calculate pairwise distance matrix for multiple sequences |
| cgrplot | Generate CGR plot coordinates for a DNA sequence |
| create_meta | Create metadata table for sequences |
| filter_N | Filter sequences by N content |
| from_DNAStringSet | Convert a DNAStringSet to a named list of sequences |
| matrixDistance | Calculate distance between two CGR frequency matrices |
| parallelCGR | Parallel computation of CGR frequency matrices |
| plot_cgr | Plot CGR with customization options |
| saveMegaDistance | Save distance matrix in MEGA format |
| savePhylipDistance | Save distance matrix in PHYLIP format |