Metadata-Version: 2.0
Name: query-phenomizer
Version: 0.5
Summary: Tool for query and parsing the phenomizer tool
Home-page: https://www.github.com/moonso/query_phenomizer
Author: Måns Magnusson
Author-email: mans.magnusson@scilifelab.se
License: Modified BSD
Keywords: hpo development phenomizer
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: Intended Audience :: Developers
Classifier: Topic :: Software Development
Classifier: License :: OSI Approved :: MIT License
Classifier: Programming Language :: Python :: 2
Classifier: Programming Language :: Python :: 2.7
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.3
Classifier: Programming Language :: Python :: 3.4
Classifier: Environment :: Console
Requires-Dist: click
Requires-Dist: pytest
Requires-Dist: requests

[![Build Status](https://travis-ci.org/moonso/query_phenomizer.svg)](https://travis-ci.org/moonso/query_phenomizer)
# query_phenomizer #

A small module for querying the [phenomizer tool](http://compbio.charite.de/phenomizer/) with HPO-terms.

# INFO!!! #

>From 16/2-16 phenomizer demands a password and username when using the service in this way.
Request login credentials from sebastian.koehler@charite.de

## Installation ##

    pip install query_phenomizer

or
```
git clone https://github.com/moonso/query_phenomizer.git
cd query_phenomizer
pip install --editable .
```
##Usage##

    query_phenomizer --hpo_term HP:0001623 --hpo_term HP:0002465 --output genes.txt -u USERNAME -p PASSWORD

User can check if hpo terms exist by using the flag ```-c/--check_terms```.

    query_phenomizer --hpo_term HP:0001623 --hpo_term HP:02345555 --output genes.txt --check_terms -v -u USERNAME -p PASSWORD

Prints that HP:02345555 does not exist.

For more info run

    query_phenomizer --help


