PYBEL

NAME

pybel - Command line interface for PyBEL

SYNOPSIS

pybel [OPTIONS] COMMAND [ARGS]...

DESCRIPTION

PyBEL is a pure Python package for parsing and handling biological
networks encoded in the Biological Expression Language (BEL) version
2. It also facilitates data interchange between common formats and
databases such as NetworkX, JSON, CSV, SIF, Cytoscape, CX, NDEx, SQL,
and Neo4J.

OPTIONS

--version

Show the version and exit.

-c, --connection TEXT

Database connection string. [default: sqlite:////home/andreas/.pybel/pybel_0.14.0_cache.db]

--help

Show this message and exit.

Commands:

compile

Compile a BEL script to a graph.

insert

Insert a graph to the database.

machine

Get content from the INDRA machine and upload to BEL Commons.

manage

Manage the database.

	neo		Upload to neo4j.
	post		Upload a graph to BEL Commons.

serialize

Serialize a graph to various formats.

summarize

Summarize a graph.

warnings

List warnings from a graph.

AUTHOR

This manpage was written by Andreas Tille for the Debian distribution and
can be used for any other usage of the program.