print.bioCond: Print a 'bioCond' Object

In MAnorm2: Tools for Normalizing and Comparing ChIP-seq Samples

Print a bioCond Object

Description

This function prints its argument, which is a bioCond object, and returns it invisibly (via invisible(x)).

Usage

## S3 method for class 'bioCond'
print(x, ...)

Arguments

x	A bioCond object.
...	Arguments passed from other methods.

Details

This function implements the print method for the "bioCond" class.

Value

The function returns x invisibly.

See Also

bioCond for creating a bioCond object.

Examples

data(H3K27Ac, package = "MAnorm2")
attr(H3K27Ac, "metaInfo")

## Print 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 these bioConds.
print(conds[[1]])
print(conds[[2]])
print(conds[[3]])

MAnorm2 documentation built on Oct. 29, 2022, 1:12 a.m.