View source: R/sig_fit_bootstrap_batch.R
sig_fit_bootstrap_batch | R Documentation |
Read sig_fit_bootstrap for more option setting.
sig_fit_bootstrap_batch(
catalogue_matrix,
methods = c("QP"),
n = 100L,
min_count = 1L,
p_val_thresholds = c(0.05),
use_parallel = FALSE,
seed = 123456L,
job_id = NULL,
result_dir = tempdir(),
...
)
catalogue_matrix |
a numeric matrix |
methods |
a subset of |
n |
the number of bootstrap replicates. |
min_count |
minimal exposure in a sample, default is 1. Any patient has total exposure less than this value will be filtered out. |
p_val_thresholds |
a vector of relative exposure threshold for calculating p values. |
use_parallel |
if |
seed |
random seed to reproduce the result. |
job_id |
a job ID, default is |
result_dir |
see above, default is temp directory defined by R. |
... |
other common parameters passing to sig_fit_bootstrap, including
|
a list
of data.table
.
sig_fit, sig_fit_bootstrap
W <- matrix(c(1, 2, 3, 4, 5, 6), ncol = 2)
colnames(W) <- c("sig1", "sig2")
W <- apply(W, 2, function(x) x / sum(x))
H <- matrix(c(2, 5, 3, 6, 1, 9, 1, 2), ncol = 4)
colnames(H) <- paste0("samp", 1:4)
V <- W %*% H
V
if (requireNamespace("quadprog")) {
z10 <- sig_fit_bootstrap_batch(V, sig = W, n = 10)
z10
}
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