Analyze, Process, Identify, and Share Raman and (FT)IR Spectra

Documentation for package ‘OpenSpecy’ version 1.1.0

Help Pages

-- A --

adj_intens	Adjust spectral intensities to absorbance units.
adj_intens.default	Adjust spectral intensities to absorbance units.
adj_intens.OpenSpecy	Adjust spectral intensities to absorbance units.
adj_neg	Normalization and conversion of spectral data
adj_res	Normalization and conversion of spectral data
adj_wave	Adjust wavelength to wavenumbers for Raman
adj_wave.default	Adjust wavelength to wavenumbers for Raman
adj_wave.OpenSpecy	Adjust wavelength to wavenumbers for Raman
ai_classify	Identify and filter spectra
ai_classify.default	Identify and filter spectra
ai_classify.OpenSpecy	Identify and filter spectra
as.data.frame.OpenSpecy	Generic Open Specy Methods
as.data.table.OpenSpecy	Generic Open Specy Methods
as_hyperSpec	Read and write spectral data
as_OpenSpecy	Create 'OpenSpecy' objects
as_OpenSpecy.data.frame	Create 'OpenSpecy' objects
as_OpenSpecy.default	Create 'OpenSpecy' objects
as_OpenSpecy.hyperSpec	Create 'OpenSpecy' objects
as_OpenSpecy.list	Create 'OpenSpecy' objects
as_OpenSpecy.OpenSpecy	Create 'OpenSpecy' objects

-- C --

calc_window_points	Smooth spectral intensities
calc_window_points.default	Smooth spectral intensities
calc_window_points.OpenSpecy	Smooth spectral intensities
check_lib	Manage spectral libraries
check_OpenSpecy	Create 'OpenSpecy' objects
collapse_spec	Define features
collapse_spec.default	Define features
collapse_spec.OpenSpecy	Define features
conform_res	Normalization and conversion of spectral data
conform_spec	Conform spectra to a standard wavenumber series
conform_spec.default	Conform spectra to a standard wavenumber series
conform_spec.OpenSpecy	Conform spectra to a standard wavenumber series
cor_spec	Identify and filter spectra
cor_spec.default	Identify and filter spectra
cor_spec.OpenSpecy	Identify and filter spectra
c_spec	Manage spectral objects
c_spec.default	Manage spectral objects
c_spec.list	Manage spectral objects
c_spec.OpenSpecy	Manage spectral objects

-- D --

-- F --

fill_spec	Identify and filter spectra
fill_spec.default	Identify and filter spectra
fill_spec.OpenSpecy	Identify and filter spectra
filter_spec	Identify and filter spectra
filter_spec.default	Identify and filter spectra
filter_spec.OpenSpecy	Identify and filter spectra
flatten_range	Range restriction and flattening for spectra
flatten_range.default	Range restriction and flattening for spectra
flatten_range.OpenSpecy	Range restriction and flattening for spectra

-- G --

-- H --

head.OpenSpecy	Generic Open Specy Methods
heatmap_spec	Interactive plots for OpenSpecy objects
heatmap_spec.default	Interactive plots for OpenSpecy objects
heatmap_spec.OpenSpecy	Interactive plots for OpenSpecy objects
human_ts	Create human readable timestamps

-- I --

ident_spec	Identify and filter spectra
interactive_plot	Interactive plots for OpenSpecy objects
interactive_plot.default	Interactive plots for OpenSpecy objects
interactive_plot.OpenSpecy	Interactive plots for OpenSpecy objects
is_empty_vector	Normalization and conversion of spectral data
is_OpenSpecy	Create 'OpenSpecy' objects

-- L --

lines.OpenSpecy	Generic Open Specy Methods
load_lib	Manage spectral libraries

-- M --

make_rel	Make spectral intensities relative
make_rel.default	Make spectral intensities relative
make_rel.OpenSpecy	Make spectral intensities relative
manage_na	Ignore or remove NA intensities
manage_na.default	Ignore or remove NA intensities
manage_na.OpenSpecy	Ignore or remove NA intensities
match_spec	Identify and filter spectra
match_spec.default	Identify and filter spectra
match_spec.OpenSpecy	Identify and filter spectra
max_cor_named	Identify and filter spectra
mean_replace	Normalization and conversion of spectral data
merge_map	Manage spectral objects
merge_map.default	Manage spectral objects
merge_map.list	Manage spectral objects
merge_map.OpenSpecy	Manage spectral objects

-- O --

-- P --

plot.OpenSpecy	Generic Open Specy Methods
plotly_spec	Interactive plots for OpenSpecy objects
plotly_spec.default	Interactive plots for OpenSpecy objects
plotly_spec.OpenSpecy	Interactive plots for OpenSpecy objects
print.OpenSpecy	Generic Open Specy Methods
process_spec	Process Spectra
process_spec.default	Process Spectra
process_spec.OpenSpecy	Process Spectra

-- R --

raman_hdpe	Sample Raman spectrum
read_any	Read spectral data from multiple files
read_asp	Read spectral data
read_envi	Read ENVI data
read_extdata	Read spectral data
read_jdx	Read spectral data
read_many	Read spectral data from multiple files
read_opus	Read spectral data from Bruker OPUS binary files
read_opus_raw	Read a Bruker OPUS spectrum binary raw string
read_spa	Read spectral data
read_spc	Read spectral data
read_spec	Read and write spectral data
read_text	Read spectral data
read_zip	Read spectral data from multiple files
restrict_range	Range restriction and flattening for spectra
restrict_range.default	Range restriction and flattening for spectra
restrict_range.OpenSpecy	Range restriction and flattening for spectra
rm_lib	Manage spectral libraries
run_app	Run Open Specy app

-- S --

sample_spec	Manage spectral objects
sample_spec.default	Manage spectral objects
sample_spec.OpenSpecy	Manage spectral objects
share_spec	Share data with the Open Specy community
share_spec.default	Share data with the Open Specy community
share_spec.OpenSpecy	Share data with the Open Specy community
sig_noise	Calculate signal and noise metrics for OpenSpecy objects
sig_noise.default	Calculate signal and noise metrics for OpenSpecy objects
sig_noise.OpenSpecy	Calculate signal and noise metrics for OpenSpecy objects
smooth_intens	Smooth spectral intensities
smooth_intens.default	Smooth spectral intensities
smooth_intens.OpenSpecy	Smooth spectral intensities
spec_res	Spectral resolution
spec_res.default	Spectral resolution
spec_res.OpenSpecy	Spectral resolution
split_spec	Split Open Specy objects
subtr_baseline	Automated background subtraction for spectral data
subtr_baseline.default	Automated background subtraction for spectral data
subtr_baseline.OpenSpecy	Automated background subtraction for spectral data
summary.OpenSpecy	Generic Open Specy Methods

-- T --

Test reference library

-- W --