lcms_plot_tics: Total Ion Count (TIC) plot

In sipss/AlpsLCMS: Signal processing of LC-MS metabolomics

Description

The function performs a plot with the Total Ion Count (TIC).

Usage

lcms_plot_tics(tics, treatment = treatment, rt = NULL, plot_type = "spec")

Arguments

tics	A Total Ion Count object generated with lcms_tics.
treatment	Class groups of the samples.
rt	Retention time boundaries.
plot_type	The plot class, either boxplot or spectra.

Value

Total Ion Count (TIC) for the polarity samples.

See Also

Other dataset functions: IPO_group_peaks(), find_peaks_cwp(), lcms_dataset_load(), lcms_dataset_save(), lcms_fill_chrom_peaks(), lcms_filter_mz(), lcms_filter_polarity(), lcms_filter_rt_min(), lcms_filter_sample_type(), lcms_meta_add(), lcms_meta_export(), lcms_plot_chrom_peak_image(), lcms_rearrange_datafiles_by_class(), lcms_retention_time_alignment_plot(), lcms_tics(), obiAdjust_Rtime(), peakpicking_optimization(), phData()

Other dataset_peak_table functions: lcms_dataset_load(), lcms_identify_metabolites(), lcms_peak_annotation(), lcms_peak_table_boxplots(), lcms_peak_table_pca(), lcms_raw_data(), lcms_sig_peaks_table(), lcms_spectral_sig_features(), lcms_tics(), lcms_to_mait()

Other chromatogram functions: lcms_plot_chrom_peak_image(), lcms_plot_chrom()

Other visualization functions: lcms_peak_table_boxplots(), lcms_peak_table_pca(), lcms_plot_chrom_peak_image(), lcms_plot_chrom(), lcms_retcorgroup_optimization(), lcms_retention_time_alignment_plot(), peakpicking_optimization()

Examples

## Not run: 
dataset <- lcms_dataset_load(system.file
                                  ("extdata","dataset_pos.rds",
                                    package = "AlpsLCMS"))
tics <- lcms_tics(dataset)

lcms_plot_tics(tics, treatment = treatment,
               rt = c(4, 8),plot_type = "spec")

lcms_plot_tics(tics, treatment = treatment,
               rt = c(4, 8), plot_type = "boxplot")

## End(Not run)

sipss/AlpsLCMS documentation built on May 13, 2021, 6:18 p.m.