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>