Index

_

__init__() (contact_map.ContactCount method) (contact_map.ContactDifference method) (contact_map.ContactFrequency method) (contact_map.ContactMap method) (contact_map.DaskContactFrequency method) (contact_map.MinimumDistanceCounter method) (contact_map.NearestAtoms method)

A

add_contact_frequency() (contact_map.ContactFrequency method) (contact_map.DaskContactFrequency method) atom_contacts (contact_map.ContactFrequency attribute) (contact_map.DaskContactFrequency attribute)

atom_count (contact_map.MinimumDistanceCounter attribute) atom_history (contact_map.MinimumDistanceCounter attribute) atom_pairs (contact_map.MinimumDistanceCounter attribute)

B

block_slices() (in module contact_map.frequency_task)

C

contact_map() (contact_map.ContactFrequency method) (contact_map.ContactMap method) (contact_map.DaskContactFrequency method) contact_map.frequency_task (module) ContactCount (class in contact_map) ContactDifference (class in contact_map)

ContactFrequency (class in contact_map) ContactMap (class in contact_map) counter (contact_map.ContactCount attribute) cutoff (contact_map.ContactDifference attribute) (contact_map.ContactFrequency attribute) (contact_map.ContactMap attribute) (contact_map.DaskContactFrequency attribute)

D

DaskContactFrequency (class in contact_map)

default_slices() (in module contact_map.frequency_task) df (contact_map.ContactCount attribute)

F

from_dict() (contact_map.ContactDifference class method) (contact_map.ContactFrequency method) (contact_map.ContactMap method) (contact_map.DaskContactFrequency method) from_file() (contact_map.ContactDifference method) (contact_map.ContactFrequency method) (contact_map.ContactMap method) (contact_map.DaskContactFrequency method)

from_json() (contact_map.ContactDifference method) (contact_map.ContactFrequency method) (contact_map.ContactMap method) (contact_map.DaskContactFrequency method)

H

haystack (contact_map.ContactDifference attribute) (contact_map.ContactFrequency attribute) (contact_map.ContactMap attribute) (contact_map.DaskContactFrequency attribute)

L

load_trajectory_task() (in module contact_map.frequency_task)

M

map_task() (in module contact_map.frequency_task) map_task_json() (in module contact_map.frequency_task) minimum_distances (contact_map.MinimumDistanceCounter attribute) MinimumDistanceCounter (class in contact_map) most_common() (contact_map.ContactCount method) most_common_atoms_for_contact() (contact_map.ContactDifference method) (contact_map.ContactFrequency method) (contact_map.ContactMap method) (contact_map.DaskContactFrequency method)

most_common_atoms_for_residue() (contact_map.ContactDifference method) (contact_map.ContactFrequency method) (contact_map.ContactMap method) (contact_map.DaskContactFrequency method) most_common_idx() (contact_map.ContactCount method)

N

n_frames (contact_map.ContactFrequency attribute) (contact_map.DaskContactFrequency attribute) n_neighbors_ignored (contact_map.ContactDifference attribute) (contact_map.ContactFrequency attribute) (contact_map.ContactMap attribute) (contact_map.DaskContactFrequency attribute)

nearest (contact_map.NearestAtoms attribute) nearest_distance (contact_map.NearestAtoms attribute) NearestAtoms (class in contact_map)

P

plot() (contact_map.ContactCount method)

Q

query (contact_map.ContactDifference attribute) (contact_map.ContactFrequency attribute) (contact_map.ContactMap attribute) (contact_map.DaskContactFrequency attribute)

R

reduce_all_results() (in module contact_map.frequency_task) reduce_all_results_json() (in module contact_map.frequency_task) residue_contacts (contact_map.ContactFrequency attribute) (contact_map.DaskContactFrequency attribute) residue_count (contact_map.MinimumDistanceCounter attribute) residue_history (contact_map.MinimumDistanceCounter attribute) residue_ignore_atom_idxs (contact_map.ContactDifference attribute) (contact_map.ContactFrequency attribute) (contact_map.ContactMap attribute) (contact_map.DaskContactFrequency attribute)

residue_query_atom_idxs (contact_map.ContactDifference attribute) (contact_map.ContactFrequency attribute) (contact_map.ContactMap attribute) (contact_map.DaskContactFrequency attribute)

S

save_to_file() (contact_map.ContactDifference method) (contact_map.ContactFrequency method) (contact_map.ContactMap method) (contact_map.DaskContactFrequency method)

sorted_distances (contact_map.NearestAtoms attribute) sparse_matrix (contact_map.ContactCount attribute) subtract_contact_frequency() (contact_map.ContactFrequency method) (contact_map.DaskContactFrequency method)

T

to_dict() (contact_map.ContactDifference method) (contact_map.ContactMap method) to_json() (contact_map.ContactDifference method) (contact_map.ContactFrequency method) (contact_map.ContactMap method) (contact_map.DaskContactFrequency method)

topology (contact_map.ContactDifference attribute) (contact_map.ContactFrequency attribute) (contact_map.ContactMap attribute) (contact_map.DaskContactFrequency attribute) (contact_map.MinimumDistanceCounter attribute)