PCAplot-methods: PCAplot

In ericaenjoy3/RNA: RNA data analysis

Description

PCA plot (PC1, PC2 and PC3) of samples

Usage

PCAplot(obj, pdffout, fout = NULL, excl.col = NULL, ntop = Inf,
  isLog = FALSE, pca2d = FALSE, small = 0.05)

## S4 method for signature 'tpm'
PCAplot(obj, pdffout, fout = NULL, excl.col = NULL,
  ntop = Inf, isLog = FALSE, pca2d = FALSE, small = 0.05)

Arguments

obj	A tpm object.
pdffout	A character string specify pdf output file.
fout	A text output file of top N most variably expressed genes.
excl.col	A numeric vector indicating columns to be excluded from the tpm slot of a tpm object.
ntop	A numeric value indicating selection of the top N most variably expressed genes, or Inf (default).
isLog	A logical value of whether the tpm data is already log2 transformed.
pca2d	A logical value indicating whether 2D instead of 3D PCA.
small	A numeric vector indicating the adjustment to the TPM values before log2 transformation.

ericaenjoy3/RNA documentation built on May 28, 2019, 8:37 p.m.