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C
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D
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E
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_
_format_fields() (edgePy.DGEList.DGEList static method)
_sample_group_dict() (edgePy.DGEList.DGEList static method)
_sample_group_list() (edgePy.DGEList.DGEList static method)
A
add() (edgePy.data_import.mongodb.mongo_wrapper.MongoInserter method)
(edgePy.data_import.mongodb.mongo_wrapper.MongoUpdater method)
C
close() (edgePy.data_import.mongodb.mongo_wrapper.MongoInserter method)
(edgePy.data_import.mongodb.mongo_wrapper.MongoUpdater method)
copy() (edgePy.DGEList.DGEList method)
counts (edgePy.DGEList.DGEList attribute)
cpm() (edgePy.DGEList.DGEList method)
create_DGEList() (edgePy.DGEList.DGEList class method)
create_DGEList_data_file() (edgePy.DGEList.DGEList class method)
create_DGEList_handle() (edgePy.DGEList.DGEList class method)
create_index() (edgePy.data_import.mongodb.mongo_wrapper.MongoWrapper method)
create_index_key() (edgePy.data_import.mongodb.mongo_wrapper.MongoInserter method)
D
DGEList (class in edgePy.DGEList)
E
EdgePy (class in scripts.edgepy)
edgePy (module)
edgePy.data_import (module)
edgePy.data_import.data_import (module)
edgePy.data_import.mongodb (module)
edgePy.data_import.mongodb.gene_functions (module)
edgePy.data_import.mongodb.mongo_import (module)
edgePy.data_import.mongodb.mongo_wrapper (module)
edgePy.DGEList (module)
F
find_as_cursor() (edgePy.data_import.mongodb.mongo_wrapper.MongoWrapper method)
find_as_dict() (edgePy.data_import.mongodb.mongo_wrapper.MongoWrapper method)
find_as_list() (edgePy.data_import.mongodb.mongo_wrapper.MongoWrapper method)
flush() (edgePy.data_import.mongodb.mongo_wrapper.MongoInserter method)
(edgePy.data_import.mongodb.mongo_wrapper.MongoUpdater method)
G
generate_results() (scripts.edgepy.EdgePy method)
genes (edgePy.DGEList.DGEList attribute)
get_canonical_raw() (in module edgePy.data_import.mongodb.gene_functions)
get_canonical_rpkm() (in module edgePy.data_import.mongodb.gene_functions)
get_data_from_mongo() (edgePy.data_import.mongodb.mongo_import.ImportFromMongodb method)
get_dataset_path() (in module edgePy.data_import.data_import)
get_db() (edgePy.data_import.mongodb.mongo_wrapper.MongoWrapper method)
get_gene_list() (in module edgePy.data_import.mongodb.gene_functions)
get_gene_mask_and_lengths() (edgePy.DGEList.DGEList method)
get_genelist_from_file() (in module edgePy.data_import.mongodb.gene_functions)
get_sample_details() (in module edgePy.data_import.mongodb.gene_functions)
I
ImportFromMongodb (class in edgePy.data_import.mongodb.mongo_import)
insert() (edgePy.data_import.mongodb.mongo_wrapper.MongoWrapper method)
K
ks_2_samples() (scripts.edgepy.EdgePy method)
L
library_size (edgePy.DGEList.DGEList attribute)
log_transform() (edgePy.DGEList.DGEList method)
M
main() (in module scripts.edgepy)
MongoInserter (class in edgePy.data_import.mongodb.mongo_wrapper)
MongoUpdater (class in edgePy.data_import.mongodb.mongo_wrapper)
MongoWrapper (class in edgePy.data_import.mongodb.mongo_wrapper)
P
parse_arguments() (in module edgePy.data_import.mongodb.mongo_import)
(in module scripts.edgepy)
R
read_npz_file() (edgePy.DGEList.DGEList method)
rpkm() (edgePy.DGEList.DGEList method)
run_ks() (scripts.edgepy.EdgePy method)
S
samples (edgePy.DGEList.DGEList attribute)
scripts (module)
scripts.edgepy (module)
T
tpm() (edgePy.DGEList.DGEList method)
translate_gene_list() (edgePy.data_import.mongodb.mongo_import.ImportFromMongodb method)
translate_genes() (in module edgePy.data_import.mongodb.gene_functions)
W
write_npz_file() (edgePy.DGEList.DGEList method)
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