Man pages for enviGCMS
GC/LC-MS Data Analysis for Environmental Science

batchGet the MIR and related information from the files
cbmdCombine two data with similar retention time while different...
findlinefind line of the regression model for GC-MS
getbgremoveGet the peak list with blank samples' peaks removed
getbiotechrepGet the report for biological replicates.
getdataGet xcmsset object in one step with optimized methods.
getfeaturesanovaGet the features from anova, with p value, q value, rsd and...
getfeaturestGet the features from t test, with p value, q value, rsd and...
getgrouprepGet the report for samples with biological and technique...
GetIntegrationGetIntegration was mainly used for get the intergration of...
GetisotopologuesGet the selected isotopologues at certain MS data
getmassdefectGet mass defect with certain scaled factor
getmassdiffIsotope extraction for single group of samples with certain...
getmdImport data and return the annotated matrix for GC/LC-MS by...
getQCrawget the data of QC compound for a group of data
getsimoutput the similarity of two dataset
gettechrepGet the report for technique replicates.
gettimegrouprepGet the time series or two factor DoE report for samples with...
getuploadGet the csv files to be submitted to Metaboanalyst
IntegrationJust intergrate data according to fixed rt and fixed noise...
mafilter data by average moving box
ploteplot EIC and boxplot for all peaks and return diffreport
plotgroupPlot the response group of GC-MS
plothistplot the density of the GC-MS data with EM algorithm to...
plotintplot the information of intergretion
plotintslopeplot the slope information of intergretion
plotkmsplot the kendrick mass defect diagram
plotmrplot the scatter plot for xcmsset (or two) objects with...
plotmrcplot the diff scatter plot for one xcmsset objects with...
plotmsplot GC/LC-MS data as a heatmap with TIC
plotmsrtPlot EIC of certain m/z and return dataframe for intergration
plotmzplot GC/LC-MS data as scatter plot
plotpcaplot the PCA of xcmsset
plotrsdplot the rsd influnces of data
plotrtmsPlot mass spectrum of certain retention time and return mass...
plotsmsPlot the intensity distribution of GC-MS
plotsubPlot the backgrond of data
plottplot GC-MS data as a heatmap for constant speed of...
plotticPlot Total Ion Chromatogram (TIC)
qbatchGet the MIR from the file
submdGet the differences of two GC/LC-MS data
svabatchPlot the influnces of DoE and Batch effects on each peaks
svacorSurrogate variable analysis(SVA) to correct the unknown batch...
svadataFilter the data with p value and q value
svapcaPrincipal component analysis(PCA) for SVA corrected data and...
svaplotFilter the data with p value and q value and show them
svauploadGet the corrected data after SVA for metabolanalyst
writeMSPWrite MSP files for NIST search
enviGCMS documentation built on July 11, 2017, 1:03 a.m.