Description Usage Arguments Value Examples
For all possible separation points for a cohort ordered by a continuous measurement, calculate hazard ratio
1 2 |
measure |
A continuous variable used to order survival data. Samples must be ordered exactly as in srv |
srv |
A dataframe that contains at least two columns, detailing event and time to event information. Samples must be ordered exactly as in measure |
time |
Column name in srv containing time to event information. Must not contain NAs |
event |
Column name in srv containing event information coded as 0 (no event) and 1 (event). Must not contain NAs |
log2HR |
Hazard ratios are returned as log2 values by default |
remove_outliers |
Large hazard ratios result from statistical disproportion when considering edge cases (e.g. 1 vs 99) and can be automaticall removed |
A vector of hazard ratios calculated from srv
ordered by
measure
1 2 3 4 5 6 | library(survivALL)
data(nki_subset)
library(Biobase)
gene_vec <- exprs(nki_subset)["NM_004448", ] #ERBB2 gene id
allHR(measure = gene_vec, srv = pData(nki_subset), time = "t.dmfs",
event = "e.dmfs", log2HR = TRUE)
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