read_analyze_wl_dir: Read and analyze work loop files from a directory

In ropensci/workloopR: Analysis of Work Loops and Other Data from Muscle Physiology Experiments

Read and analyze work loop files from a directory

Description

All-in-one function to import multiple workloop .ddf files from a directory, sort them by mtime, analyze them, and store the resulting objects in an ordered list.

Usage

read_analyze_wl_dir(file_path, pattern = "*.ddf", sort_by = "mtime", ...)

Arguments

file_path	Directory in which files are located
pattern	Regular expression used to specify files of interest. Defaults to all .ddf files within file_path
sort_by	Metadata by which files should be sorted to be in the correct run order. Defaults to mtime, which is time of last modification of files.
...	Additional arguments to be passed to read_analyze_wl(), analyze_workloop(), select_cycles(), or read_ddf().

Details

Work loop data files will be imported and then arranged in the order in which they were run (assuming run order is reflected in mtime). Chiefly used in conjunction with summarize_wl_trials() and time_correct() if time correction is desired.

Value

A list containing analyzed_workloop objects, one for each file that is imported and subsequently analyzed. The list is sorted according to the sort_by parameter, which by default uses the time of last modification of each file's contents (mtime).

Warning

Most systems we have encountered record Position data in millimeters and Force in millinewtons, and therefore this function assumes data are recorded in those units. Through a series of internal conversions, this function computes velocity in meters/sec, work in Joules, and power in Watts. If your raw data do not originate in millimeters and millinewtons, please transform your data accordingly and ignore what you see in the attribute units.

Author(s)

Shreeram Senthivasan

References

Josephson RK. 1985. Mechanical Power output from Striated Muscle during Cyclic Contraction. Journal of Experimental Biology 114: 493-512.

See Also

read_analyze_wl, get_wl_metadata, summarize_wl_trials, time_correct

Other data analyses: analyze_workloop(), isometric_timing(), read_analyze_wl()

Other data import functions: as_muscle_stim(), get_wl_metadata(), read_analyze_wl(), read_ddf_dir(), read_ddf()

Other workloop functions: analyze_workloop(), fix_GR(), get_wl_metadata(), invert_position(), read_analyze_wl(), select_cycles(), summarize_wl_trials(), time_correct()

Other batch analyses: get_wl_metadata(), summarize_wl_trials(), time_correct()

Examples

library(workloopR)

# batch read and analyze files included with workloopR
analyzed_wls <- read_analyze_wl_dir(system.file("extdata/wl_duration_trials",
                                                package = 'workloopR'),
                                    phase_from_peak = TRUE,
                                    cycle_def = "p2p", keep_cycles = 2:4)

ropensci/workloopR documentation built on July 21, 2024, 4:31 p.m.