Welcome to the Auto-p2docking v1 manual!

Auto-p2docking v1

• What is auto-p2docking v1?
• How to run auto-phylo
• Version customization
• auto-phylo script basic structure
• Protocols
• Pipeliner (GUI)

Built-in modules

• Modules configuration
• Ligand selection
  • evoppi_querier
  • geneid2uniprotkb
  • intersect
  • exclude
  • copy
  • human_prot_atlas
• PDB retrieval and selection
  • getalphafoldpdb
  • getpdb
  • getditasserpdb
  • tm-align-pdb
  • tm-align-cutoff
• Active and passive sites selection
  • cport_like
  • consensus
• Docking
  • hdock
  • haddock
  • pydock_ftdock
• Surface extraction
  • pisa_ccp4_extract
  • pisa_server_extract
  • pisa_xml_extract
• Data analysis and visualization
  • distance_tree
  • get_pattern
  • highlight_regions
  • tabulate
• Special
  • pipeline_drawing
  • block

References

• Bibliography
• evoppi_querier options
  • For Bos taurus the following options are available:
  • For Caenorhabditis elegans the following options are available:
  • For Danio rerio the following options are available:
  • For Drosophila melanogaster the following options are available:
  • For Gallus gallus the following options are available:
  • For Homo sapiens the following options are available:
  • For Mus musculus the following options are available:
  • For Oryctolagus cuniculus the following options are available:
  • For Rattus norvegicus the following options are available:
  • For Xenopus laevis the following options are available: