---
name: "pybel"
section: "1"
platform: "linux"
package: "python3-pybel"
version: "0.15.5-1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/pybel"
---

# pybel(1)

Command line interface for 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.