Index

A

add() (TRAPT.Tools.RPMatrix method) Args (class in TRAPT.Tools)

args (in module TRAPT.Run) (TRAPT.CalcTRAUC.CalcTRAUC attribute) ATAC (TRAPT.Tools.Type attribute)

B

background_genes (TRAPT.Tools.Args attribute)

binarization() (TRAPT.Tools.RPMatrix method)

C

CalcSTM (class in TRAPT.DLVGAE) CalcTRAUC (class in TRAPT.CalcTRAUC) CalcTRSampleRPMatrix (class in TRAPT.CalcTRSampleRPMatrix)

call() (TRAPT.DLFS.CustomSigmoid method) CustomSigmoid (class in TRAPT.DLFS) CVAE (class in TRAPT.DLVGAE)

D

dhs2gene() (in module TRAPT.CalcSampleRPMatrix) (in module TRAPT.CalcTRRPMatrix)

F

FeatureSelection (class in TRAPT.DLFS) forward() (TRAPT.DLVGAE.CVAE method) (TRAPT.DLVGAE.InnerProductDecoderWeight method) (TRAPT.DLVGAE.VariationalGCNEncoder method)

G

get_act() (TRAPT.DLFS.FeatureSelection method) get_auc() (TRAPT.CalcTRAUC.CalcTRAUC static method) get_config() (TRAPT.DLFS.SparseGroupLasso method) get_corr() (TRAPT.DLFS.FeatureSelection method)

get_cos_similar_matrix() (TRAPT.DLVGAE.CalcSTM static method) get_data() (TRAPT.Tools.RPMatrix method) get_edge_index() (TRAPT.DLVGAE.CalcSTM method) get_loss() (TRAPT.DLFS.FeatureSelection method)

H

H3K27ac (TRAPT.Tools.Type attribute)

I

init_cvae() (TRAPT.DLVGAE.CalcSTM method) init_vgae() (TRAPT.DLVGAE.CalcSTM method)

InnerProductDecoderWeight (class in TRAPT.DLVGAE) input (TRAPT.Tools.Args attribute) iter_params() (TRAPT.CalcTRAUC.CalcTRAUC method)

K

kl_div() (TRAPT.DLVGAE.CVAE method)

L

library (TRAPT.CalcTRSampleRPMatrix.CalcTRSampleRPMatrix attribute) (TRAPT.Tools.Args attribute)

M

main() (in module TRAPT.Run) minmax_scale() (TRAPT.Tools.RPMatrix method) module TRAPT TRAPT.CalcSampleRPMatrix TRAPT.CalcTRAUC TRAPT.CalcTRRPMatrix TRAPT.CalcTRSampleRPMatrix TRAPT.DLFS TRAPT.DLVGAE TRAPT.Run TRAPT.Tools

N

norm() (TRAPT.Tools.RPMatrix method)

O

output (TRAPT.CalcTRSampleRPMatrix.CalcTRSampleRPMatrix attribute) (TRAPT.Tools.Args attribute)

P

predict_h() (TRAPT.DLVGAE.CVAE method) (TRAPT.DLVGAE.VariationalGCNEncoder method)

R

recon_loss() (TRAPT.DLVGAE.CalcSTM method) reparametrize() (TRAPT.DLVGAE.CVAE method) Returns (in module TRAPT.Run) RP_Matrix (class in TRAPT.Tools) RP_Matrix_TR_Sample (TRAPT.CalcTRAUC.CalcTRAUC attribute)

RPMatrix (class in TRAPT.Tools) run() (TRAPT.CalcTRAUC.CalcTRAUC method) (TRAPT.CalcTRSampleRPMatrix.CalcTRSampleRPMatrix method) (TRAPT.DLFS.FeatureSelection method) (TRAPT.DLVGAE.CalcSTM method) runTRAPT() (in module TRAPT.Run)

S

save_graph() (TRAPT.DLVGAE.CalcSTM method) seed_tensorflow() (in module TRAPT.DLFS) seed_torch() (in module TRAPT.DLVGAE) sort_by_group() (TRAPT.DLFS.FeatureSelection method) source (TRAPT.Tools.Args attribute)

sparse_to_tensor() (TRAPT.DLVGAE.CalcSTM static method) SparseGroupLasso (class in TRAPT.DLFS) standard_scale() (TRAPT.Tools.RPMatrix method) str2bool() (in module TRAPT.CalcTRRPMatrix) (in module TRAPT.Run)

T

threads (TRAPT.Tools.Args attribute) tr_type (TRAPT.Tools.Args attribute) train() (TRAPT.DLFS.FeatureSelection method) training (TRAPT.DLVGAE.CVAE attribute) (TRAPT.DLVGAE.InnerProductDecoderWeight attribute) (TRAPT.DLVGAE.VariationalGCNEncoder attribute) TRAPT module TRAPT.CalcSampleRPMatrix module TRAPT.CalcTRAUC module TRAPT.CalcTRRPMatrix module

TRAPT.CalcTRSampleRPMatrix module TRAPT.DLFS module TRAPT.DLVGAE module TRAPT.Run module TRAPT.Tools module trunk_size (TRAPT.Tools.Args attribute) TSFS() (TRAPT.DLFS.FeatureSelection method) Type (class in TRAPT.Tools) type (TRAPT.CalcTRSampleRPMatrix.CalcTRSampleRPMatrix attribute)

U

use_kd (TRAPT.Tools.Args attribute)

V

VariationalGCNEncoder (class in TRAPT.DLVGAE)

W

w (TRAPT.CalcTRAUC.CalcTRAUC attribute)