RouxCil
commented
4 years ago Similar issue in the log-likelihood function LL:
Error in 1:nrow(rdat$wells) : argument of length 0
The code causing the issue:
res <- sapply(1:length(data), function(i) { region <- names(data)[i] rdat <- data[[region]]
Changed to:
res <- sapply(1:length(data[[1]]), function(i) { region <- names(data[[1]])[i] rdat <- data[[1]][[region]]
When running the Metropolis-Hastings sampling the code fails with the following error:
Error in mh(data, max.steps = 1e+05, skip.console = 1000, skip.log = 100) : (list) object cannot be coerced to type 'integer'
The issue is in determining the number of variants per region here:
m <- lapply(data, function(sub) ncol(sub$wells)) and, regions <- names(m)
The first level of this list is the Patient ID so above code returns NULL.
Fixing code to:
m <- lapply(data[[1]], function(sub) ncol(sub$wells))