Man pages for acinostroza/TargetSearch
A package for the analysis of GC-MS metabolite profiling data
| baseline | Baseline correction - wrapper function |
| baselineCorrection | Baseline correction - Chang's method |
| baselineCorrectionQuant | Baseline correction - quantiles method |
| checkRimLim | Visually check retention index marker limits |
| FAMEoutliers | FAME outlier detection |
| file | Convert RI files from text to binary format and vice versa |
| FindAllPeaks | Extract peaks from chromatogram files - low level function |
| FindPeaks | Extract peaks from chromatogram files |
| fixRI | Fixing Retention Time Index Correction |
| ImportFameSettings | Retention time markers settings |
| ImportLibrary | Library import |
| ImportSamples | Sample definitions |
| makeIndex | Make an index vector out of selective/top masses |
| medianRILib | Median RI library correction |
| ncdf4_convert | Convert from a NetCDF file format 3 to format 4 |
| ncdf4_convert_from_path | Convert CDF files to CDF4 from a path automatically |
| ncdf4Convert-method | Method for converting CDF-3 files to CDF-4 |
| ncdf4_data_extract | Extract data ranges from a NetCDF file format 4 |
| ncdf4_plot_peak | Plot peaks from ncdf4 files |
| ncdf4_update_ri | Update retention time index on a NCDF4 file |
| NetCDFPeakFinding | Peak picking algorithm from CDF files |
| peakCDFextraction | NetCDF to R |
| peakFind | Intensities and RI matrices |
| plotFAME | Plot a standard marker |
| plotPeak | Plot peaks |
| plotPeakRI | Plot peak RI across samples |
| plotPeakSimple | Plot peaks - simple (old) interface |
| plotRefSpectra | Plot reference spectrum of a compound |
| plotRIdev | Plot Retention Time Index Deviation |
| plotSpectra | Plot a Spectra Comparison |
| Profile | Average the correlating masses for each metabolite |
| ProfileCleanUp | Reduce redundancy of the profile |
| quantMatrix | Create an intensity matrix using quantification masses |
| ri2rt | Retention Time Index to Retention Time conversion |
| RIcorrect | Peak picking from CDF files and RI correction |
| ri_data_extract | Extract peak data from a RI file |
| riMatrix | Retention Time Index Matrix |
| ri_plot_peak | Plot peak RI across samples - low level interface |
| rt2ri | Retention Time to Retention Time Index conversion |
| sampleRI | Sample specific RI detection |
| TargetSearch-defunct | Defunct functions in package 'TargetSearch' |
| TargetSearch-deprecated | Deprecated functions in package 'TargetSearch' |
| TargetSearch-package | A targeted approach for GC-MS data. |
| TSExample | Example GC-MS data for TargetSearch Package |
| tsLib-class | Class for representing a reference library |
| tsMSdata-class | Class for representing MS data |
| tsProfile-class | Class for representing a MS profile |
| tsRim-class | Class for representing retention index markers |
| tsSample-class | Class for representing samples |
| tsUpdate-method | Methods for Updating TargetSearch objects 'tsUpdate' |
| updateRI | Updating Time Index correction |
| writeLibText | Save a library object in text format |
| writeMSP | Save spectra in MSP format to be visualized in NIST |
| Write.Results | Save TargetSearch result objects into files |
