rnaglib
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What is an RNA 2.5D graph?
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rnaglib
Index
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Index
A
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B
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C
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D
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E
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F
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G
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H
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K
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L
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M
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N
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O
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P
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R
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S
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U
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V
A
add_graph_annotations() (in module rnaglib.prepare_data)
add_hashtable() (rnaglib.kernels.node_sim.SimFunctionNode method)
annotate_all() (in module rnaglib.prepare_data)
B
batch() (rnaglib.representations.GraphRepresentation method)
(rnaglib.representations.PointCloudRepresentation method)
(rnaglib.representations.Representation method)
(rnaglib.representations.RingRepresentation method)
(rnaglib.representations.VoxelRepresentation method)
build_hash_table() (in module rnaglib.utils)
build_iso() (in module rnaglib.config.build_iso_mat)
build_node_feature_parser() (in module rnaglib.utils)
C
chop_all() (in module rnaglib.prepare_data)
cif_to_graph() (in module rnaglib.prepare_data)
circular_layout() (in module rnaglib.drawing.rna_layout)
collate() (rnaglib.data_loading.Collater method)
Collater (class in rnaglib.data_loading)
compare() (rnaglib.kernels.node_sim.SimFunctionNode method)
compute_dim() (rnaglib.data_loading.RNADataset method)
compute_features() (rnaglib.data_loading.RNADataset method)
D
dangle_trim() (in module rnaglib.utils)
delta_indices_sim() (rnaglib.kernels.node_sim.SimFunctionNode static method)
download_graphs() (in module rnaglib.utils)
dump_json() (in module rnaglib.utils)
E
extract_graphlet() (in module rnaglib.utils)
F
filter_all() (in module rnaglib.prepare_data)
filter_dot_edges() (in module rnaglib.prepare_data)
fix_buggy_edges() (in module rnaglib.utils)
G
gap_fill() (in module rnaglib.utils)
ged() (in module rnaglib.ged)
,
[1]
ged_approx() (in module rnaglib.ged)
,
[1]
get_cost_nodes() (rnaglib.kernels.node_sim.SimFunctionNode method)
get_length() (rnaglib.kernels.node_sim.SimFunctionNode method)
get_loader() (in module rnaglib.data_loading)
get_nt_encoding() (rnaglib.data_loading.RNADataset method)
get_pdbid() (rnaglib.data_loading.RNADataset method)
get_rna_list() (in module rnaglib.utils)
get_undirected_iso() (in module rnaglib.config.build_iso_mat)
graph_edge_freqs() (in module rnaglib.kernels.node_sim)
graph_from_pdbid() (in module rnaglib.utils)
graphlet() (rnaglib.kernels.node_sim.SimFunctionNode method)
graphlet_cost_nodes() (rnaglib.kernels.node_sim.SimFunctionNode method)
GraphRepresentation (class in rnaglib.representations)
H
hariboss_filter() (in module rnaglib.prepare_data)
hungarian() (rnaglib.kernels.node_sim.SimFunctionNode method)
K
k_block_list() (in module rnaglib.kernels.node_sim)
L
load_graph() (in module rnaglib.utils)
load_json() (in module rnaglib.utils)
M
make_label() (in module rnaglib.drawing.rna_draw)
module
rnaglib.config.build_iso_mat
rnaglib.data_loading
rnaglib.drawing.rna_draw
rnaglib.drawing.rna_layout
rnaglib.ged
,
[1]
rnaglib.kernels.node_sim
rnaglib.prepare_data
rnaglib.representations
rnaglib.utils
N
name (rnaglib.representations.GraphRepresentation property)
(rnaglib.representations.PointCloudRepresentation property)
(rnaglib.representations.Representation property)
(rnaglib.representations.RingRepresentation property)
(rnaglib.representations.VoxelRepresentation property)
normalize() (rnaglib.kernels.node_sim.SimFunctionNode method)
O
one_rna_from_cif() (in module rnaglib.prepare_data)
P
pdist_list() (in module rnaglib.kernels.node_sim)
PointCloudRepresentation (class in rnaglib.representations)
process_axis() (in module rnaglib.drawing.rna_draw)
R
R_1() (rnaglib.kernels.node_sim.SimFunctionNode method)
R_graphlets() (rnaglib.kernels.node_sim.SimFunctionNode method)
R_iso() (rnaglib.kernels.node_sim.SimFunctionNode method)
reorder_nodes() (in module rnaglib.utils)
Representation (class in rnaglib.representations)
rescale_layout() (in module rnaglib.drawing.rna_layout)
RingRepresentation (class in rnaglib.representations)
rna_draw() (in module rnaglib.drawing.rna_draw)
rna_draw_grid() (in module rnaglib.drawing.rna_draw)
rna_draw_pair() (in module rnaglib.drawing.rna_draw)
RNADataset (class in rnaglib.data_loading)
rnaglib.config.build_iso_mat
module
rnaglib.data_loading
module
rnaglib.drawing.rna_draw
module
rnaglib.drawing.rna_layout
module
rnaglib.ged
module
,
[1]
rnaglib.kernels.node_sim
module
rnaglib.prepare_data
module
rnaglib.representations
module
rnaglib.utils
module
S
simfunc_time() (in module rnaglib.kernels.node_sim)
SimFunctionNode (class in rnaglib.kernels.node_sim)
subset() (rnaglib.data_loading.RNADataset method)
U
update_RNApdb() (in module rnaglib.utils)
V
VoxelRepresentation (class in rnaglib.representations)
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