Index

A

add() (glycosylator.utils.visual.Canvas method) add_child() (glycosylator.utils.visual.Node method) add_linkage() (glycosylator.resources.sequons.Sequon method)

add_sequon() (in module glycosylator.resources.sequons) all_nodes (glycosylator.utils.visual.Canvas attribute) attach() (glycosylator.core.Glycan.Glycan method) available_sequons() (in module glycosylator.resources.sequons)

B

beta_alpha_mismatch_pattern (glycosylator.utils.iupac.IUPACStringMaker attribute)

beta_alpha_mismatch_replacement (glycosylator.utils.iupac.IUPACStringMaker attribute)

C

Canvas (class in glycosylator.utils.visual) canvas (glycosylator.utils.visual.Node attribute)

children (glycosylator.utils.visual.Node attribute) clashes_with_scaffold() (glycosylator.core.Glycan.Glycan method) crop_to() (glycosylator.core.Glycan.Glycan method)

D

depth (glycosylator.utils.visual.Node property) disable_glycowork() (glycosylator.utils.visual.GlycanViewer2D method) dont_use_glycowork() (in module glycosylator.utils.visual) double_beta_pattern (glycosylator.utils.iupac.IUPACStringMaker attribute)

double_beta_replacement (glycosylator.utils.iupac.IUPACStringMaker attribute) draw2d() (glycosylator.core.Glycan.Glycan method) draw_glycans() (glycosylator.utils.visual.ScaffoldViewer2D method) draw_glycosylation_sites() (glycosylator.utils.visual.ScaffoldViewer2D method)

E

edge_label_defaults (in module glycosylator.utils.visual)

enable_glycowork() (glycosylator.utils.visual.GlycanViewer2D method) extend_to() (glycosylator.core.Glycan.Glycan method)

F

find_glycosmos_ids() (glycosylator.core.Glycan.Glycan method) find_glytoucan_ids() (glycosylator.core.Glycan.Glycan method) flip() (glycosylator.utils.visual.Canvas method) from_compound() (glycosylator.core.Glycan.Glycan class method) from_dict() (glycosylator.utils.visual.Canvas class method)

from_glycan() (glycosylator.utils.visual.Canvas class method) from_glycosmos() (glycosylator.core.Glycan.Glycan class method) from_glytoucan() (glycosylator.core.Glycan.Glycan class method) from_iupac() (glycosylator.core.Glycan.Glycan class method) from_pdb() (glycosylator.core.Glycan.Glycan class method) from_snfg() (glycosylator.core.Glycan.Glycan class method)

G

get_ancestors() (glycosylator.utils.visual.Node method) get_base_color() (in module glycosylator.resources.icons), [1] get_clashing_nodes() (glycosylator.utils.visual.Canvas method) get_default_sequons() (in module glycosylator.resources.sequons) get_descendants() (glycosylator.utils.visual.Node method) get_figure() (glycosylator.utils.visual.ScaffoldViewer2D method) get_glycosmos_id() (glycosylator.core.Glycan.Glycan method) get_glytoucan_id() (glycosylator.core.Glycan.Glycan method) get_icon() (in module glycosylator.resources.icons), [1] get_icon_path() (in module glycosylator.resources.icons), [1] get_left_cousins() (glycosylator.utils.visual.Node method) get_left_siblings() (glycosylator.utils.visual.Node method) get_linkage() (glycosylator.resources.sequons.Sequon method) get_right_cousins() (glycosylator.utils.visual.Node method) get_right_siblings() (glycosylator.utils.visual.Node method) get_sequon() (in module glycosylator.resources.sequons) get_xlim() (glycosylator.utils.visual.Canvas method) get_ylim() (glycosylator.utils.visual.Canvas method) Glycan (class in glycosylator.core.Glycan) glycan() (in module glycosylator.core.Glycan)

GlycanViewer2D (class in glycosylator.utils.visual) glycosylator module glycosylator.core.Glycan module glycosylator.core.Scaffold module, [1] glycosylator.optimizers module glycosylator.optimizers.utils module glycosylator.resources.icons module, [1] glycosylator.resources.names module, [1] glycosylator.resources.sequons module glycosylator.utils.iupac module glycosylator.utils.visual module

H

has_descendant() (glycosylator.utils.visual.Node method) has_node() (glycosylator.utils.visual.Canvas method)

has_valid_placement() (glycosylator.utils.visual.Node method) hist() (glycosylator.core.Glycan.Glycan method)

I

icicle_layout() (glycosylator.utils.visual.Canvas method) icon (glycosylator.utils.visual.Node attribute) id (glycosylator.utils.visual.Node attribute) id_to_name() (in module glycosylator.resources.names), [1]

infer_glycan_tree() (glycosylator.core.Glycan.Glycan method) is_beta() (in module glycosylator.resources.names), [1] is_free() (glycosylator.utils.visual.Canvas method) IUPACParser (class in glycosylator.utils.iupac) IUPACStringMaker (class in glycosylator.utils.iupac)

L

leaves (glycosylator.utils.visual.Canvas property)

load_sequons() (in module glycosylator.resources.sequons)

M

make_iupac_string() (in module glycosylator.utils.iupac) make_link_id() (in module glycosylator.utils.iupac) make_scaffold_graph() (in module glycosylator.optimizers.utils) make_snfg_string() (in module glycosylator.utils.iupac) module glycosylator glycosylator.core.Glycan glycosylator.core.Scaffold, [1] glycosylator.optimizers glycosylator.optimizers.utils glycosylator.resources.icons, [1] glycosylator.resources.names, [1] glycosylator.resources.sequons glycosylator.utils.iupac glycosylator.utils.visual

move_to() (glycosylator.utils.visual.Node method)

N

Node (class in glycosylator.utils.visual)

P

parent (glycosylator.utils.visual.Node attribute) parse() (glycosylator.utils.iupac.IUPACParser method)

parse_iupac() (in module glycosylator.utils.iupac) parse_snfg() (in module glycosylator.utils.iupac) place() (glycosylator.utils.visual.Node method)

R

read_graph() (in module glycosylator.core.Glycan) read_iupac() (in module glycosylator.core.Glycan) read_snfg() (in module glycosylator.core.Glycan) remove() (glycosylator.utils.visual.Canvas method) remove_child() (glycosylator.utils.visual.Node method)

remove_residues() (glycosylator.core.Glycan.Glycan method) render() (glycosylator.utils.visual.Canvas method) reset() (glycosylator.utils.iupac.IUPACParser method) restore_sequons() (in module glycosylator.resources.sequons) root_nodes (glycosylator.utils.visual.Canvas attribute) rotate90() (glycosylator.utils.visual.Canvas method)

S

save() (glycosylator.utils.visual.ScaffoldViewer2D method) save_sequons() (in module glycosylator.resources.sequons) ScaffoldViewer2D (class in glycosylator.utils.visual) scale() (glycosylator.utils.visual.Canvas method) search_glycosmos_ids() (glycosylator.core.Glycan.Glycan method) search_glytoucan_ids() (glycosylator.core.Glycan.Glycan method) Sequon (class in glycosylator.resources.sequons)

SEQUONS (in module glycosylator.resources.sequons) set_default_sequons() (in module glycosylator.resources.sequons) shift_down() (glycosylator.utils.visual.Node method) shift_up() (glycosylator.utils.visual.Node method) show() (glycosylator.utils.visual.ScaffoldViewer2D method) siblings (glycosylator.utils.visual.Node property) snfg() (glycosylator.core.Glycan.Glycan method)

T

terminal_alpha_pattern (glycosylator.utils.iupac.IUPACStringMaker attribute) terminal_alpha_replacement (glycosylator.utils.iupac.IUPACStringMaker attribute) terminal_beta_pattern (glycosylator.utils.iupac.IUPACStringMaker attribute) terminal_beta_replacement (glycosylator.utils.iupac.IUPACStringMaker attribute)

title() (glycosylator.utils.visual.ScaffoldViewer2D method) to_dict() (glycosylator.resources.sequons.Sequon method) to_iupac() (glycosylator.core.Glycan.Glycan method) to_snfg() (glycosylator.core.Glycan.Glycan method) tree_layout() (glycosylator.utils.visual.Canvas method)

U

USE_GLYCOWORK (in module glycosylator.utils.visual)

use_glycowork() (in module glycosylator.utils.visual)

W

write_iupac() (in module glycosylator.core.Glycan)

write_snfg() (in module glycosylator.core.Glycan) write_string() (glycosylator.utils.iupac.IUPACStringMaker method)

X

x (glycosylator.utils.visual.Node attribute)

xlim (glycosylator.utils.visual.Canvas property)

Y

y (glycosylator.utils.visual.Node attribute)

ylim (glycosylator.utils.visual.Canvas property)