Package index • mnirs

Read data

Read raw data from exported files.

read_mnirs(): Read mnirs data from file
example_mnirs(): Get path to mnirs example files
create_mnirs_data(): Create an mnirs data frame with metadata

Pre-process data

Clean, filter, and process data.

replace_mnirs() replace_invalid() replace_outliers() replace_missing(): Replace outliers, invalid values, and missing values
resample_mnirs(): Re-sample a data frame
filter_mnirs(): Filter a data frame
filter_butter(): Apply a Butterworth digital filter
filter_moving_average(): Apply a moving average filter
shift_mnirs(): Shift data range
rescale_mnirs(): Re-scale data range

Interval detection

Detect and extract intervals for further analysis

extract_intervals(): Extract intervals from mnirs data

Process kinetics

Estimate response dynamics and kinetic parameters

peak_slope(): Find peak linear slope
SS_monoexp3() SS_monoexp4(): Self-starting monoexponential models
monoexponential(): Monoexponential function with 4 parameters

Plotting

Tools for pretty plotting with ggplot2.

plot(<mnirs>): Plot mnirs objects
theme_mnirs(): Custom mnirs ggplot2 theme
palette_mnirs(): Custom mnirs colour palette
scale_colour_mnirs() scale_color_mnirs() scale_fill_mnirs(): Scales for custom mnirs palette
breaks_timespan(): Breaks for timespan data
format_hmmss(): Format timespan data as h:mm:ss

Files

Example data files included in the package

moxy_intervals.csv: 0.5 Hz Moxy onboard export
train.red_intervals.csv: 10 Hz Train.Red App export
vo2master.csv: 1 Hz VO2master app recording from Moxy
artinis_intervals.xlsx: 10 Hz Artinis Oxysoft export recorded with Oxymon MKIII
moxy_ramp.xlsx: 2 Hz PerfPro export of Moxy data
portamon-oxcap.xlsx: 10 Hz Artinis Oxysoft export recorded with Portamon