addLastDose: Add Lastdose Data
In EHR: Electronic Health Record (EHR) Data Processing and Analysis Tool
addLastDose R Documentation
Add Lastdose Data
Description
Add lastdose data to data set from the buildDose process.
Usage
addLastDose(buildData, lastdoseData)
Arguments
buildData
data.frame, output of buildDose function.
lastdoseData
data.frame with columns filename, ld_start, lastdose, raw_time, time_type
Details
Lastdose is a datetime string associated with dose data. Information on time
of last dose can be extracted within the extractMed function
(i.e., medExtractR) using the argument
lastdose=TRUE. Raw extracted times should first be processed using the
processLastDose function to convert to datetime format before providing
to addLastDose. This function then combines the processed last dose times with output
from the buildDose process by file name to pair last dose times with dosing regimens based on position.
Alternatively, the user can provide their own table of lastdose data. In this case, with position
information absent, the lastdose data should be restricted to one unique last dose time per
unique patient ID-date identifier.
In the case where lastdoseData is output from processLastDose, it is possible to
have more than one extracted last dose time. In this case, rules are applied to determine which
time should be kept. First, we give preference to an explicit time expression (e.g., "10:30pm")
over a duration expression (e.g., "14 hour level"). Then, we pair last dose times with drug regimens
based on minimum distance between last dose time start position and drug name start position.
See EHR Vignette for Extract-Med and Pro-Med-NLP for details.
Value
a data.frame with the ‘lastdose’ column added.
Examples
# Get build data
data(tac_mxr_parsed)
# don't combine lastdose at this stage
tac_build <- buildDose(tac_mxr_parsed, preserve = 'lastdose')
# Get processed last dose data
tac_mxr <- read.csv(system.file("examples", "tac_mxr.csv", package = "EHR"))
data(tac_metadata)
data(tac_lab)
ld_data <- processLastDose(tac_mxr, tac_metadata, tac_lab)
addLastDose(tac_build, ld_data)
EHR documentation built on Dec. 28, 2022, 1:31 a.m.
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| addLastDose | R Documentation |
Add Lastdose Data
Description
Add lastdose data to data set from the buildDose process.
Usage
addLastDose(buildData, lastdoseData)
Arguments
buildData |
data.frame, output of |
lastdoseData |
data.frame with columns filename, ld_start, lastdose, raw_time, time_type |
Details
Lastdose is a datetime string associated with dose data. Information on time
of last dose can be extracted within the extractMed function
(i.e., medExtractR) using the argument
lastdose=TRUE. Raw extracted times should first be processed using the
processLastDose function to convert to datetime format before providing
to addLastDose. This function then combines the processed last dose times with output
from the buildDose process by file name to pair last dose times with dosing regimens based on position.
Alternatively, the user can provide their own table of lastdose data. In this case, with position
information absent, the lastdose data should be restricted to one unique last dose time per
unique patient ID-date identifier.
In the case where lastdoseData is output from processLastDose, it is possible to
have more than one extracted last dose time. In this case, rules are applied to determine which
time should be kept. First, we give preference to an explicit time expression (e.g., "10:30pm")
over a duration expression (e.g., "14 hour level"). Then, we pair last dose times with drug regimens
based on minimum distance between last dose time start position and drug name start position.
See EHR Vignette for Extract-Med and Pro-Med-NLP for details.
Value
a data.frame with the ‘lastdose’ column added.
Examples
# Get build data
data(tac_mxr_parsed)
# don't combine lastdose at this stage
tac_build <- buildDose(tac_mxr_parsed, preserve = 'lastdose')
# Get processed last dose data
tac_mxr <- read.csv(system.file("examples", "tac_mxr.csv", package = "EHR"))
data(tac_metadata)
data(tac_lab)
ld_data <- processLastDose(tac_mxr, tac_metadata, tac_lab)
addLastDose(tac_build, ld_data)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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