CovFile                 'mbQTL' "CovFile"
RegSnp                  'RegSnp' creates a dataframe of parsed long snp
                        files
SnpFile                 'mbQTL' "SnpFile"
allToAllProduct         'allToAllProduct' creates a dataframe of snp
                        and taxa correlations
binarizeMicrobe         'binarizeMicrobe' binarizes microbe abundace
                        file based on user's cutoff
coringTaxa              'coringTaxa' creates correlation dataframe for
                        taxa
histPvalueLm            histPvalueLm a histogram of Taxa and SNP linear
                        regression analysis. This function creates a
                        histogram object of all SNPs with all taxa
                        Linear regression analysis p values.
linearTaxaSnp           linearTaxaSnp Performs linear regression
                        analysis between taxa and SNPs and returns
                        concordance statistics
logRegSnpsTaxa          'logRegSnpsTaxa' Performs logistic regression
                        analysis between taxa and SNPs and returns
                        concordance statistics
logitPlotSnpTaxa        logitPlotSnpTaxa produces bar plots for counts
                        of ref vs alt vs het allells for particular
                        rsID taxa combinations
mbQTL-package           title 'mbQTL' is a package for microbial
                        QTL/GWAS Analysis
mbQtlCorHeatmap         'mbQtlCorHeatmap' for making heatmap for snp,
                        taxa rho values
metagenomeSeqObj        'mbQTL' "metagenomeSeqObj" "MetagenomSeqObj" is
                        an 'MRexperiment' object format of the
                        "microbeAbund" file.
metagenomeSeqToMbqtl    Written by Mercedeh Movassagh
                        mercedeh@ds.dfci.harvard.edu, January 2023:
                        metagenomeSeqToMbqtl Converts metagenomeSeq obj
                        to compatible taxa dataframe
microbeAbund            'mbQTL' "microbiomeAbund" File
prepareCorData          'prepareCorData' prpares and joins snp-taxa and
                        taxa-taxa correlation file.
qqPlotLm                qqPlotLm creates QQ-Plot of all SNPs with all
                        taxa Linear regression analysis This function
                        creates QQ-Plot object of all SNPs with all
                        taxa Linear regression analysis of expected
                        versus observed P values
taxaSnpCor              'taxaSnpCor' for estimation of the rho value
                        between snp, taxa correlations across datasets
