Bio2BEL FamPlex
Bio2BEL FamPlex.
This repository contains utilities for downloading, parsing, and serializing
FamPlex to BEL.
Manager for Bio2BEL FamPlex.
-
class
bio2bel_famplex.manager.
Manager
(*args, **kwargs)[source]
Protein family and complex hierarchy.
-
count_entries
()[source]
Count the number of entries in the database.
- Return type
int
-
count_relations
()[source]
Count the number of relationships in the database.
- Return type
int
-
static
is_populated
()[source]
Return if the database is populated.
- Return type
bool
-
normalize_terms
(graph, use_tqdm=False)[source]
Normalize FamPlex nodes in the graph.
- Return type
None
-
summarize
()[source]
Summarize the database.
- Return type
Mapping
[str
, int
]
-
to_bel
()[source]
Generate a BEL graph.
- Return type
BELGraph
bio2bel_famplex
Default connection at None
using Bio2BEL v0.2.1
bio2bel_famplex [OPTIONS] COMMAND [ARGS]...
Options
-
-c
,
--connection
<connection>
Defaults to None
bel
Manage BEL.
bio2bel_famplex bel [OPTIONS] COMMAND [ARGS]...
upload
Upload BEL to network store.
bio2bel_famplex bel upload [OPTIONS]
Options
-
-c
,
--connection
<connection>
write
Write as BEL Script.
bio2bel_famplex bel write [OPTIONS]
Options
-
-o
,
--output
<output>