print.summaryBioCond {MAnorm2} | R Documentation |
Print a summaryBioCond
Object
Description
This function prints the summary
result of a
bioCond
object.
Usage
## S3 method for class 'summaryBioCond'
print(x, ...)
Arguments
x |
An object of class |
... |
Arguments passed from other methods. |
Details
This function implements the print
method for the
"summaryBioCond"
class.
Value
The function returns x
invisibly.
See Also
bioCond
for creating a bioCond
object;
summary.bioCond
for summarizing a bioCond
object.
Examples
data(H3K27Ac, package = "MAnorm2")
attr(H3K27Ac, "metaInfo")
## Print summary results of bioConds that correspond to individuals.
# Perform the MA normalization and construct bioConds to represent
# individuals.
norm <- normalize(H3K27Ac, 4, 9)
norm <- normalize(norm, 5:6, 10:11)
norm <- normalize(norm, 7:8, 12:13)
conds <- list(GM12890 = bioCond(norm[4], norm[9], name = "GM12890"),
GM12891 = bioCond(norm[5:6], norm[10:11], name = "GM12891"),
GM12892 = bioCond(norm[7:8], norm[12:13], name = "GM12892"))
autosome <- !(H3K27Ac$chrom %in% c("chrX", "chrY"))
conds <- normBioCond(conds, common.peak.regions = autosome)
# Print summary results of these bioConds.
print(summary(conds[[1]]))
print(summary(conds[[2]]))
print(summary(conds[[3]]))
# Print summary results of these bioConds after fitting a mean-variance
# curve for them.
conds <- fitMeanVarCurve(conds, method = "parametric", occupy.only = TRUE)
print(summary(conds[[1]]))
print(summary(conds[[2]]))
print(summary(conds[[3]]))
[Package MAnorm2 version 1.2.2 Index]