Welcome to oxDNA UTILS documentation!¶
Scripts¶
| generate | Generates oxDNA configuration and topology files. |
| ligation | Ligates two strands in an origami. |
| modify_topology | Changes sequences to poly-T in an origami. |
| mutual_traps | Makes a mutual trap external force file. |
| output_bonds | Prints out all interactions in the system. |
| pulling_force | Makes a pulling external force file. |
| set_seq_strand | Changes sequences of whole strands in an origami. |
| set_seq_vh_vb | Changes sequences in an origami, e.g. sticky ends. |
Modules¶
base |
Utility functions for oxDNA systems, strands and nucleotides. |
generators |
Generates simple DNA structures. |
origami_utils |
Utility functions for DNA origamis designed in cadnano and simulated in oxDNA. |
readers |
Reads oxDNA configuration and topology files. |