Index

C

check_params() (gopca.GOPCAParams method)

configs (GOPCA attribute)

E

escore (gopca.GOPCASignature attribute)

estimate_num_components() (gopca.GOPCA method)

F

filter_collection_signatures() (gopca.GOPCASignatureMatrix method) filter_signatures() (gopca.GOPCASignatureMatrix method)

finalize_params() (gopca.GOPCAConfig method) from_signatures() (gopca.GOPCASignatureMatrix class method)

G

gene_ontology (GOPCAConfig attribute) gene_set (gopca.GOPCASignature attribute) gene_set_id (gopca.GOPCASignature attribute) gene_sets (GOPCAConfig attribute) genes (gopca.GOPCASignature attribute) get_expression() (gopca.GOPCASignature method) get_figure() (gopca.GOPCASignature method) (gopca.GOPCASignatureMatrix method) get_heatmap() (gopca.GOPCASignature method) (gopca.GOPCASignatureMatrix method)

get_label() (gopca.GOPCASignature method) get_signature() (gopca.GOPCASignatureMatrix method) get_signature_labels() (gopca.GOPCASignatureMatrix method) GOPCA (class in gopca) GOPCAConfig (class in gopca) GOPCAParams (class in gopca) GOPCARun (class in gopca) GOPCASignature (class in gopca) GOPCASignatureMatrix (class in gopca) gse_result (GOPCASignature attribute)

H

hash (gopca.GOPCASignatureMatrix attribute)

K

K (gopca.GOPCASignature attribute)

k (gopca.GOPCASignature attribute)

M

matrix (GOPCA attribute) (GOPCASignature attribute) mHG_cutoff (gopca.GOPCASignature attribute)

mHG_K (gopca.GOPCASignature attribute) mHG_k (gopca.GOPCASignature attribute) mHG_N (gopca.GOPCASignature attribute)

N

n (gopca.GOPCASignature attribute) (gopca.GOPCASignatureMatrix attribute)

num_components (GOPCA attribute)

P

param_defaults (gopca.GOPCAParams attribute) params (gopca.GOPCAParams attribute) (GOPCAConfig attribute) pc (GOPCASignature attribute) pc_max_components (GOPCA attribute)

pc_num_permutations (GOPCA attribute) pc_seed (GOPCA attribute) pc_zscore_thresh (GOPCA attribute) print_signatures() (gopca.GOPCA static method) pval (gopca.GOPCASignature attribute)

Q

q (gopca.GOPCASignatureMatrix attribute)

R

read_ini() (gopca.GOPCAParams class method) read_pickle() (gopca.GOPCARun class method)

reset_params() (gopca.GOPCAParams method) run() (gopca.GOPCA method)

S

s (gopca.GOPCASignature attribute) samples (gopca.GOPCASignature attribute) seed (GOPCASignature attribute) set_param() (gopca.GOPCA method) (gopca.GOPCAParams method)

signature_labels (gopca.GOPCASignatureMatrix attribute) signatures (gopca.GOPCASignatureMatrix attribute) simple_setup() (gopca.GOPCA class method)

U

user_params (GOPCAConfig attribute)

V

verbose (GOPCA attribute)

W

write_ini() (gopca.GOPCAParams method)

write_pickle() (gopca.GOPCARun method) (gopca.GOPCASignatureMatrix method)

X

X (gopca.GOPCASignature attribute)