AUTHORS
CONTRIBUTING.md
LICENSE
MANIFEST.in
README.md
requirements.txt
setup.cfg
setup.py
docs/authors.rst
docs/conf.py
docs/contributing.rst
docs/history.rst
docs/index.rst
docs/installation.rst
docs/make.bat
docs/readme.rst
docs/usage.rst
pymip/__init__.py
pymip/__main__.py
pymip/cli.py
pymip/compat.py
pymip/log.py
pymip/utils.py
pymip.egg-info/PKG-INFO
pymip.egg-info/SOURCES.txt
pymip.egg-info/dependency_links.txt
pymip.egg-info/entry_points.txt
pymip.egg-info/not-zip-safe
pymip.egg-info/requires.txt
pymip.egg-info/top_level.txt
pymip/api/__init__.py
pymip/api/analysis.py
pymip/api/core.py
pymip/api/family.py
pymip/api/institute.py
requirements/conda.txt
requirements/development.txt
tests/test_pymip.py
tests/test_utils.py
tests/fixtures/demo_config.yaml
tests/fixtures/sample_config.yaml
tests/fixtures/.clinical/config.yaml
tests/fixtures/cust001/family/analysis/exomes/family/family_qcmetrics.yaml
tests/fixtures/cust001/family/analysis/exomes/family/bwa/gatk/family_sorted_pmd_rreal_brecal_gvcf_vrecal_vep_parsed_snpeff_ranked_BOTH.selected.vcf
tests/fixtures/cust001/family/analysis/exomes/family/madeline/family_madeline.xml
tests/fixtures/cust001/family/analysis/exomes/sample/.gitkeep
tests/fixtures/cust001/family/exomes/family/family_config.yaml
tests/fixtures/cust001/family/exomes/family/family_pedigree.txt
tests/fixtures/cust001/family/exomes/family/family_qc_sampleInfo.yaml
tests/fixtures/cust001/family/exomes/sample/.gitkeep
tests/fixtures/cust001/family/exomes/sample/fastq/.gitkeep
tests/fixtures/references/cust000-Clinical_master_list.txt
tests/fixtures/references/cust002-AD.txt
tests/fixtures/scout/family/config_clinical.ini