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ravecore (version 0.1.0)

LFP_electrode: Definitions of electrode with local field potential signal type

Description

Please use a safer new_electrode function to create instances. This documentation is to describe the member methods of the electrode class LFP_electrode

Arguments

Value

if the reference number if NULL or 'noref', then returns 0, otherwise returns a FileArray-class

If simplify is enabled, and only one block is loaded, then the result will be a vector (type="voltage") or a matrix (others), otherwise the result will be a named list where the names are the blocks.

Super classes

ravepipeline::RAVESerializable -> ravecore::RAVEAbstarctElectrode -> LFP_electrode

Active bindings

h5_fname

'HDF5' file name

valid

whether current electrode is valid: subject exists and contains current electrode or reference; subject electrode type matches with current electrode type

raw_sample_rate

voltage sample rate

power_sample_rate

power/phase sample rate

preprocess_info

preprocess information

power_file

path to power 'HDF5' file

phase_file

path to phase 'HDF5' file

voltage_file

path to voltage 'HDF5' file

Methods

Inherited methods

Method @marshal()

Internal method

Usage

LFP_electrode$@marshal(...)

Arguments

...

internal arguments

Method @unmarshal()

Internal method

Usage

LFP_electrode$@unmarshal(object)

Arguments

object, ...

internal arguments

Method print()

print electrode summary

Usage

LFP_electrode$print()

Method set_reference()

set reference for current electrode

Usage

LFP_electrode$set_reference(reference)

Arguments

reference

either NULL or LFP_electrode instance

Method new()

constructor

Usage

LFP_electrode$new(subject, number, quiet = FALSE)

Arguments

subject, number, quiet

see constructor in RAVEAbstarctElectrode

Method .load_noref_wavelet()

load non-referenced wavelet coefficients (internally used)

Usage

LFP_electrode$.load_noref_wavelet(reload = FALSE)

Arguments

reload

whether to reload cache

Method .load_noref_voltage()

load non-referenced voltage (internally used)

Usage

LFP_electrode$.load_noref_voltage(reload = FALSE)

Arguments

reload

whether to reload cache

srate

voltage signal sample rate

Method .load_wavelet()

load referenced wavelet coefficients (internally used)

Usage

LFP_electrode$.load_wavelet(
  type = c("power", "phase", "wavelet-coefficient"),
  reload = FALSE
)

Arguments

type

type of data to load

reload

whether to reload cache

Method .load_voltage()

load referenced voltage (internally used)

Usage

LFP_electrode$.load_voltage(reload = FALSE)

Arguments

reload

whether to reload cache

Method .load_raw_voltage()

load raw voltage (no process)

Usage

LFP_electrode$.load_raw_voltage(reload = FALSE)

Arguments

reload

whether to reload cache

Method load_data_with_epochs()

method to load electrode data

Usage

LFP_electrode$load_data_with_epochs(
  type = c("power", "phase", "voltage", "wavelet-coefficient", "raw-voltage")
)

Arguments

type

data type such as "power", "phase", "voltage", "wavelet-coefficient", and "raw-voltage". For "power", "phase", and "wavelet-coefficient", 'Wavelet' transforms are required. For "voltage", 'Notch' filters must be applied. All these types except for "raw-voltage" will be referenced. For "raw-voltage", no reference will be performed since the data will be the "raw" signal (no processing).

Method load_dimnames_with_epochs()

get expected dimension names

Usage

LFP_electrode$load_dimnames_with_epochs(
  type = c("power", "phase", "voltage", "wavelet-coefficient", "raw-voltage")
)

Arguments

type

see load_data_with_epochs

Method load_data_with_blocks()

load electrode block-wise data (with no reference), useful when epoch is absent

Usage

LFP_electrode$load_data_with_blocks(
  blocks,
  type = c("power", "phase", "voltage", "wavelet-coefficient", "raw-voltage"),
  simplify = TRUE
)

Arguments

blocks

session blocks

type

data type such as "power", "phase", "voltage", "raw-voltage" (with no filters applied, as-is from imported), "wavelet-coefficient". Note that if type is "raw-voltage", then the data only needs to be imported; for "voltage" data, 'Notch' filters must be applied; for all other types, 'Wavelet' transforms are required.

simplify

whether to simplify the result

Method load_dim_with_blocks()

get expected dimension information for block-based loader

Usage

LFP_electrode$load_dim_with_blocks(
  blocks,
  type = c("power", "phase", "voltage", "wavelet-coefficient", "raw-voltage")
)

Arguments

blocks, type

see load_data_with_blocks

Method clear_cache()

method to clear cache on hard drive

Usage

LFP_electrode$clear_cache(...)

Arguments

...

ignored

Method clear_memory()

method to clear memory

Usage

LFP_electrode$clear_memory(...)

Arguments

...

ignored

Method clone()

The objects of this class are cloneable with this method.

Usage

LFP_electrode$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.

Examples

Run this code

# Download subject demo/DemoSubject

if(has_rave_subject("demo/DemoSubject")) {

subject <- as_rave_subject("demo/DemoSubject", strict = FALSE)

# Electrode 14 in demo/DemoSubject
e <- new_electrode(subject = subject, number = 14, signal_type = "LFP")

# Load CAR reference "ref_13-16,24"
ref <- new_reference(subject = subject, number = "ref_13-16,24",
                     signal_type = "LFP")
e$set_reference(ref)

# Set epoch
e$set_epoch(epoch = 'auditory_onset')

# Set loading window
e$trial_intervals <- list(c(-1, 2))

# Preview
print(e)

# Now epoch power
power <- e$load_data_with_epochs("power")
names(dimnames(power))

# Subset power
subset(power, Time ~ Time < 0, Electrode ~ Electrode == 14)


# clear cache on hard disk
e$clear_cache()
ref$clear_cache()

}

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