Metadata-Version: 2.1
Name: igsr-analysis
Version: 1.1.4
Summary: This package contains code that is relevant for the analysis (Mapping, BAM qc, Variant Calling, Filtering etc...) of IGSR data.
Home-page: https://github.com/igsr/igsr_analysis/archive/refs/tags/v1.1.4.tar.gz
Author: Ernesto Lowy
Author-email: ernestolowy@gmail.com
License: MIT
Description: 
        This repo contains code that is relevant for the analysis (Mapping, BAM qc, Variant Calling, Filtering etc...) of IGSR data 
        
        The International Genome Sample Resource [(IGSR)](http://www.internationalgenome.org/) is a project funded by the [Wellcome Trust](https://wellcome.ac.uk/) created after the finalization of the 1000 Genomes Project in order to maintain and expand the resource. It has the following aims:
        
        * Ensure the future access to and usability of the 1000 Genomes reference data
        * Incorporate additional published genomic data on the 1000 Genomes samples
        * Expand the data collection to include new populations not represented in the 1000 Genomes Project 
        
        This repository contains code used in the different analyses pipelines that we use in the project. To use this code please follow the steps described below
        
        ### Preparing environment
        Modify your $PYTHONPATH to include the required libraries:<br>
        ```export PYTHONPATH=${ehive_dir}/wrappers/python3/:$PYTHONPATH```
        
        Modify your $PERL5LIB to include the required libraries:<br>
        ```export PERL5LIB=${ehive_dir}/modules/:${igsr_analysis_dir}/:${PERL5LIB}```
        
        Modify your $PATH to include the location of the eHive scripts:
        ```export PATH=${ehive_dir}/scripts/:${PATH}```
        
        ### Install the igsr_analysis package from PyPI
        
        ```pip install igsr_analysis```
        
        And you are ready to go! 
        
        ### Conventions used in this README file:
        
        ```${igsr_analysis_dir}``` is the folder where you have cloned https://github.com/igsr/igsr_analysis.git<br>
        ```${ehive_dir}``` is the folder where you have cloned https://github.com/Ensembl/ensembl-hive.git<br>
        
        [![DOI](https://zenodo.org/badge/99792445.svg)](https://zenodo.org/badge/latestdoi/99792445)
        
Platform: UNKNOWN
Classifier: License :: OSI Approved :: MIT License
Classifier: Programming Language :: Python
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.0
Classifier: Programming Language :: Python :: Implementation :: CPython
Classifier: Programming Language :: Python :: Implementation :: PyPy
Requires-Python: >=3.0.0
Description-Content-Type: text/markdown
