LICENSE.txt
MANIFEST.in
README.mkd
configuration_example_1_of_2.ini
configuration_example_2_of_2.ini
setup.py
pyGenClean/__init__.py
pyGenClean/pipeline_error.py
pyGenClean/run_data_clean_up.py
pyGenClean/version.py
pyGenClean.egg-info/PKG-INFO
pyGenClean.egg-info/SOURCES.txt
pyGenClean.egg-info/dependency_links.txt
pyGenClean.egg-info/entry_points.txt
pyGenClean.egg-info/pbr.json
pyGenClean.egg-info/requires.txt
pyGenClean.egg-info/top_level.txt
pyGenClean/Contamination/__init__.py
pyGenClean/Contamination/contamination.py
pyGenClean/DupSNPs/__init__.py
pyGenClean/DupSNPs/duplicated_snps.py
pyGenClean/DupSamples/__init__.py
pyGenClean/DupSamples/duplicated_samples.py
pyGenClean/Ethnicity/__init__.py
pyGenClean/Ethnicity/check_ethnicity.py
pyGenClean/Ethnicity/find_outliers.py
pyGenClean/Ethnicity/plot_eigenvalues.py
pyGenClean/FlagHW/__init__.py
pyGenClean/FlagHW/flag_hw.py
pyGenClean/FlagMAF/__init__.py
pyGenClean/FlagMAF/flag_maf_zero.py
pyGenClean/HeteroHap/__init__.py
pyGenClean/HeteroHap/remove_heterozygous_haploid.py
pyGenClean/LaTeX/__init__.py
pyGenClean/LaTeX/auto_report.py
pyGenClean/LaTeX/merge_reports.py
pyGenClean/LaTeX/utils.py
pyGenClean/LaTeX/templates/float_template.tex
pyGenClean/LaTeX/templates/graphics_template.tex
pyGenClean/LaTeX/templates/longtable_template.tex
pyGenClean/LaTeX/templates/main_document.tex
pyGenClean/LaTeX/templates/summary_table.tex
pyGenClean/LaTeX/templates/tabular_template.tex
pyGenClean/MarkerMissingness/__init__.py
pyGenClean/MarkerMissingness/snp_missingness.py
pyGenClean/Misc/__init__.py
pyGenClean/Misc/compare_gold_standard.py
pyGenClean/NoCallHetero/__init__.py
pyGenClean/NoCallHetero/clean_noCall_hetero_snps.py
pyGenClean/NoCallHetero/heterozygosity_plot.py
pyGenClean/PlateBias/__init__.py
pyGenClean/PlateBias/plate_bias.py
pyGenClean/PlinkUtils/__init__.py
pyGenClean/PlinkUtils/compare_bim.py
pyGenClean/PlinkUtils/plot_MDS.py
pyGenClean/PlinkUtils/plot_MDS_standalone.py
pyGenClean/PlinkUtils/subset_data.py
pyGenClean/RelatedSamples/__init__.py
pyGenClean/RelatedSamples/find_related_samples.py
pyGenClean/RelatedSamples/merge_related_samples.py
pyGenClean/SampleMissingness/__init__.py
pyGenClean/SampleMissingness/sample_missingness.py
pyGenClean/SexCheck/__init__.py
pyGenClean/SexCheck/baf_lrr_plot.py
pyGenClean/SexCheck/gender_plot.py
pyGenClean/SexCheck/sex_check.py