Index

A

abnumber() (in module flat.abnumber) abrenumber() (in module flat.abnumber) add_missing_atoms() (in module flat.modelling) align2eigen() (in module flat.editing)

align2points() (in module flat.editing) append() (flat.coloring.Palette method) aromatic_centers() (in module flat.creating) axis() (in module flat.viewing)

B

beautify() (in module flat.viewing)

bounding_box() (in module flat.viewing)

C

cbalpha() (in module flat.coloring) cbattr() (in module flat.coloring) cbc() (in module flat.coloring) cbe() (in module flat.coloring) cbi() (in module flat.coloring) cbo() (in module flat.coloring) cbs() (in module flat.coloring)

clustalo() (in module flat.clustalo) Color (class in flat.coloring) com() (in module flat.creating) cone() (in module flat.shapes) copy_identifiers() (in module flat.editing) count() (in module flat.querying) cube() (in module flat.shapes) cylinder() (in module flat.shapes)

D

density() (in module flat.querying)

diff() (in module flat.selecting)

E

ext_coef() (in module flat.querying)

extend() (flat.coloring.Palette method)

F

filter() (in module flat.viewing) find_seq() (in module flat.selecting) fix_h() (in module flat.modelling) flat.abnumber module flat.clustalo module flat.coloring module flat.creating module flat.editing module flat.electrostatics module flat.exporting module flat.glycans module flat.hydrophobic module flat.importing module

flat.minimizing module flat.modelling module flat.msms module flat.plotting module flat.prolif module flat.propka module flat.querying module flat.selecting module flat.shapes module flat.viewing module fragment() (in module flat.creating)

G

get_colors() (in module flat.coloring) get_contacts() (in module flat.querying) get_dipole() (in module flat.querying) get_longest_distance() (in module flat.querying) get_raw_distances() (in module flat.querying)

get_sasa() (in module flat.querying) get_seq() (in module flat.querying) get_ss() (in module flat.querying) get_vacuum_esp() (in module flat.electrostatics) gridbox() (in module flat.viewing)

H

hex() (flat.coloring.Color static method)

hydropathy() (in module flat.hydrophobic) hydropathy_moment() (in module flat.hydrophobic)

I

insert() (flat.coloring.Palette method) interp() (flat.coloring.Palette method)

invert() (flat.coloring.Color method) iterate_state_to_list() (in module flat.querying) iterate_to_list() (in module flat.querying)

L

length() (in module flat.querying) load_all() (in module flat.importing) load_aln() (in module flat.importing)

load_csv() (in module flat.importing) load_ndx() (in module flat.importing) load_smi() (in module flat.importing) load_topol() (in module flat.importing)

M

minimize_mm() (in module flat.minimizing) minimize_ob() (in module flat.minimizing) minimize_rdkit() (in module flat.minimizing) module flat.abnumber flat.clustalo flat.coloring flat.creating flat.editing flat.electrostatics flat.exporting flat.glycans flat.hydrophobic flat.importing flat.minimizing flat.modelling flat.msms flat.plotting flat.prolif flat.propka flat.querying flat.selecting flat.shapes flat.viewing

msms() (in module flat.msms) mutate() (in module flat.modelling)

O

octahedron() (in module flat.shapes)

P

Palette (class in flat.coloring) plot() (in module flat.plotting) plot_contacts() (in module flat.plotting) plot_ramachandran() (in module flat.plotting)

polygon() (in module flat.shapes) prism() (in module flat.shapes) prolif() (in module flat.prolif) propka() (in module flat.propka) pyramid() (in module flat.shapes)

R

randomize_coords_if_collapsed() (in module flat.minimizing) relax() (in module flat.modelling) remove_alt() (in module flat.editing)

renumber() (in module flat.editing) replace() (in module flat.modelling) rgb() (flat.coloring.Color static method) rgyro() (in module flat.querying)

S

save_colored_fasta() (in module flat.exporting) save_csv() (in module flat.exporting) save_gro() (in module flat.exporting) save_mda() (in module flat.exporting) save_ndx() (in module flat.exporting) save_pir() (in module flat.exporting) save_xyzr() (in module flat.exporting) sbond() (in module flat.modelling) sculpt_homolog() (in module flat.modelling) set_charges_and_radii() (in module flat.electrostatics)

set_color_palette() (in module flat.coloring) sidechain_centers() (in module flat.creating) snfg() (in module flat.glycans) sort() (flat.coloring.Palette method) sphere() (in module flat.shapes) split() (in module flat.editing) star() (in module flat.shapes) sum_formal_charges() (in module flat.electrostatics) sum_partial_charges() (in module flat.electrostatics) symdiff() (in module flat.selecting)

T

title() (in module flat.viewing) to_hex() (flat.coloring.Color method)

to_hsl() (flat.coloring.Color method) to_rgb() (flat.coloring.Color method) torus() (in module flat.shapes)

U

unwrap() (in module flat.editing)

update_align() (in module flat.modelling)

W

wait_for() (in module flat.selecting)

wrap() (in module flat.editing)