######################### CCP4i2 Task Documentation ######################### ========================================================== Import merged data, AU Contents, alignments or coordinates ========================================================== .. toctree:: :maxdepth: 1 import_merged/index ProvideAsuContents/index ProvideSequence/index ProvideAlignment/index AlternativeImportXIA2/index coordinate_selector/index splitMtz/index import_serial/index ====================== Integrate X-ray images ====================== .. toctree:: :maxdepth: 1 xia2_dials/index xia2_xds/index imosflm/index dials/image_viewer dials/rlattice_viewer dui/index ================================= X-ray data reduction and analysis ================================= .. toctree:: :maxdepth: 1 aimless_pipe/index freerflag/index matthews/index srf/index AUSPEX/index =================================== AlphaFold and RoseTTAFold Utilities =================================== .. toctree:: :maxdepth: 1 ccp4mg_edit_model/index mrparse/index editbfac/index slicendice/index arcimboldo/index ==================== Experimental phasing ==================== .. toctree:: :maxdepth: 1 crank2/crank2 shelx/shelx phaser_EP_LLG/index *Use* `fprime `_ *to calculates anomalous scattering factors (f' and f") if needed* ============== Bioinformatics ============== .. toctree:: :maxdepth: 1 ccp4mg_edit_model/index ccp4mg_edit_nomrbump/index chainsaw/index sculptor/index ensemble_phaser/index clustalw/index mrparse/index findmyseq/index ===================== Molecular replacement ===================== .. toctree:: :maxdepth: 1 mrbump_basic/index phaser_pipeline/index molrep_pipe/index csymmatch/index ample/index fragon/index comit/index dimple/index morda_i2/index phaser_pipeline/single_atom ==================== Density Modification ==================== .. toctree:: :maxdepth: 1 acorn/index parrot/index =========================== Model building and graphics =========================== .. toctree:: :maxdepth: 1 buccaneer_build_refine_mr/index arp_warp_classic/index modelcraft/index coot_rebuild/index coot_find_waters/index coot_script_lines/index nautilus_build_refine/index ccp4mg_general/index shelxeMR/index dr_mr_modelbuild_pipeline/index ========== Refinement ========== .. toctree:: :maxdepth: 1 prosmart_refmac/index tls/index coot_refinement/index lorestr_i2/index pairef/index shift_field/index ======= Ligands ======= .. toctree:: :maxdepth: 1 LidiaAcedrgNew/index ====================== Valiation and analysis ====================== .. toctree:: :maxdepth: 1 validate_protein/index edstats/index privateer/index pisapipe/index zanuda/zanuda ===================== Export and Deposition ===================== .. toctree:: :maxdepth: 1 PrepareDeposit/index mergeMtz/index ===================== Reflection data tools ===================== .. toctree:: :maxdepth: 1 pointless_reindexToMatch/index cphasematch/index cmapcoeff/index ctruncate/index chltofom/index freerflag/index matthews/index ===================== Coordinate data tools ===================== .. toctree:: :maxdepth: 1 gesamt/index coordinate_selector/index fractional_coordinates/index Indices and tables ================== * :ref:`genindex` * :ref:`modindex` * :ref:`search`