Package index • OncReg

Basic data cleaning

OR.0.rm(): Remove zero elements

OR.F.to.NA(): Convert FALSE values to NA

OR.NA.rm(): Remove missing values

OR.NA.to.0(): Convert missing values to zero

OR.NA.to.F(): Convert missing values to FALSE

OR.NA.to.empty(): Convert missing values to empty strings

OR.as.numeric(): Convert strings to numeric after normalising minus signs and stripping digit grouping separators

OR.string.to.binary(): Convert string variable to binary variable

Delimited strings

OR.delim.contains(): Detect delimited string elements (case-insensitive and whitespace-trimmed)

OR.delim.intersect(): Check if two delimited strings share any element (case-insensitive and whitespace-trimmed)

OR.delim.merge(): Merge delimited string elements pairwise (case-insensitive and whitespace-trimmed)

OR.delim.replace(): Replace delimited string elements (case-insensitive and whitespace-trimmed)

OR.delim.split(): Split delimited string elements (case-insensitive and whitespace-trimmed)

OR.delim.subset(): Check if one delimited string is a subset of another (case-insensitive and whitespace-trimmed)

OR.delim.table(): Frequency table of delimited string elements (case-insensitive and whitespace-trimmed)

OR.delim.txclass(): Classify common medical oncology treatments (work in progress)

OR.delim.txname(): Standardize common medical oncology treatment names (work in progress)

Google Maps Platform

OR.Google.TSP(): Travelling salesman distance via Google Routes API

OR.Google.address(): Resolve address using Google Geocoding API

OR.Google.distance(): Road distance between two addresses using Google Routes API

Microsoft Excel serial dates

OR.dmyY.to.Excel(): Convert mixed format dates to Microsoft Excel serial dates

OR.mdyY.to.Excel(): Convert mixed format dates to Microsoft Excel serial dates

Multiple lines of treatment

OR.txlines.restart(): Identify treatment restart after a minimum treatment-free interval

OR.txlines.timeline(): Construct treatment timelines (long format)

OR.txlines.truncate(): Truncate stop dates by maximum duration

OR.txlines.wide(): Convert treatment timelines to wide format

Outlier detection

OR.kMAD(): Small-sample MAD cutoff under normality

OR.outliers(): Non-parametric outlier detection using the modified z-score method

OR.outliers.rlm(): Polynomial linear non-parametric outlier detection

OR.outliers.rlm.ggplot(): Polynomial linear non-parametric outlier plot

Summary statistics

OR.max(): Maximum with NA removal or NA if no valid entries

OR.mean(): Arithmetic mean with NA removal or NA if no valid entries

OR.min(): Minimum with NA removal or NA if no valid entries

OR.mode(): Statistical mode

OR.modefreq(): Frequency of the mode

OR.rowleft(): Row-wise leftmost non-missing value

OR.rowmax(): Row-wise maxima

OR.rowmax.threshold(): Row-wise maxima below a threshold

OR.rowmin(): Row-wise minima

OR.rowmin.threshold(): Row-wise minima above a threshold

OR.sum(): Sum with NA removal or NA if no valid entries

Treatment dosing

OR.dose.vials(): Minimum-cost vial combination to achieve a target dose

OR.dose.weights(): Stabilize and impute dosing weights within clusters

Other

OR.LOCF(): Last observation carried forward

OR.collapse(): Collapse repeated measurements across IDs

OR.permutations(): Enumerate permutations of k out of n items

OR.read.csv.stub(): Read CSV files matching a path stub and combine by rows

OR.survoutcome(): Survival outcomes

AICR.Huber(): Robust Akaike information criterion for Huber M-estimation

rlm.Huber(): Robust linear regression using Huber M-estimation