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...
enviGCMS-deprecatedDeprecated functions in package 'enviGCMS'.
findlinefind line of the regression model for GC-MS
getareaGet the peak information from sampels for SCCPs detection
getareastdGet the peak information from SCCPs standards
getbgremoveGet the peak list with blank samples' peaks removed
getbiotechrepGet the report for biological replicates.
getdataGet xcmsset object in one step with optimized methods.
getdata2Get XCMSnExp object in one step from structured folder path...
getdoeFilter the data based on DoE, rsd, intensity
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...
getimputationImpute the peaks list data
GetIntegrationGetIntegration was mainly used for get the intergration of...
GetisotopologuesGet the selected isotopologues at certain MS data
getmassdefectGet mass defect with certain scaled factor
getmdImport data and return the annotated matrix for GC/LC-MS by...
getmrGet the mzrt profile and group information for batch...
getmzrtGet the mzrt profile and group information for batch...
getmzrt2Get the mzrt profile and group information for batch...
getmzrtcsvCovert the peaks list csv file into list
getQCrawget the data of QC compound for a group of data
getsccpQuantitative analysis for short-chain chlorinated...
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
getupload2Get the csv files to be submitted to Metaboanalyst
gifmrplot scatter plot for rt-mz profile and output gif file for...
IntegrationJust intergrate data according to fixed rt and fixed noise...
mafilter data by average moving box
Modedefine the Mode function
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...
plothmPlot the heatmap of mzrt profiles
plotintplot the information of intergretion
plotintslopeplot the slope information of intergretion
plotkmsplot the kendrick mass defect diagram
plotmrplot the scatter plot for peaks list with threshold
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 list
plotrsdplot the rsd influnces of data in different groups
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
runsccpShiny application for Short-Chain Chlorinated Paraffins...
sccpShort-Chain Chlorinated Paraffins(SCCPs) peaks infomation for...
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 April 26, 2018, 1:04 a.m.