Python Module Index

p
 
p
pyGenClean
    pyGenClean.Contamination
    pyGenClean.Contamination.contamination
    pyGenClean.DupSamples
    pyGenClean.DupSamples.duplicated_samples
    pyGenClean.DupSNPs
    pyGenClean.DupSNPs.duplicated_snps
    pyGenClean.Ethnicity
    pyGenClean.Ethnicity.check_ethnicity
    pyGenClean.Ethnicity.find_outliers
    pyGenClean.Ethnicity.plot_eigenvalues
    pyGenClean.FlagHW
    pyGenClean.FlagHW.flag_hw
    pyGenClean.FlagMAF
    pyGenClean.FlagMAF.flag_maf_zero
    pyGenClean.HeteroHap
    pyGenClean.HeteroHap.remove_heterozygous_haploid
    pyGenClean.LaTeX
    pyGenClean.LaTeX.auto_report
    pyGenClean.LaTeX.merge_reports
    pyGenClean.LaTeX.utils
    pyGenClean.MarkerMissingness
    pyGenClean.MarkerMissingness.snp_missingness
    pyGenClean.Misc
    pyGenClean.Misc.compare_gold_standard
    pyGenClean.NoCallHetero
    pyGenClean.NoCallHetero.clean_noCall_hetero_snps
    pyGenClean.NoCallHetero.heterozygosity_plot
    pyGenClean.pipeline_error
    pyGenClean.PlateBias
    pyGenClean.PlateBias.plate_bias
    pyGenClean.PlinkUtils
    pyGenClean.PlinkUtils.compare_bim
    pyGenClean.PlinkUtils.plot_MDS
    pyGenClean.PlinkUtils.plot_MDS_standalone
    pyGenClean.PlinkUtils.subset_data
    pyGenClean.RelatedSamples
    pyGenClean.RelatedSamples.find_related_samples
    pyGenClean.RelatedSamples.merge_related_samples
    pyGenClean.run_data_clean_up
    pyGenClean.SampleMissingness
    pyGenClean.SampleMissingness.sample_missingness
    pyGenClean.SexCheck
    pyGenClean.SexCheck.baf_lrr_plot
    pyGenClean.SexCheck.gender_plot
    pyGenClean.SexCheck.sex_check
    pyGenClean.version