read.taqman {ReadqPCR} | R Documentation |
Reads Taqman RT-qPCR data and uses the data to populate an object of class
"qPCRBatch"
.
read.taqman(..., filenames = character(0), phenoData = new("AnnotatedDataFrame"), notes = "", verbose = FALSE)
... |
file names separated by comma. |
filenames |
file names in a character vector. |
phenoData |
an
|
notes |
notes. |
verbose |
verbosity flag. If true more messages are given to the user on the processing steps |
Permits the user to read in qPCR Cq value data from an sds output file,
alongside phenotypic data and further notes about the data. If phenoData
is a data.frame
, it is converted to an AnnotatedDataFrame
. If it
is NULL
then a default object of class AnnotatedDataFrame
is
created, whose pData
is a data.frame
with rownames being the
names of the , and with one column sample
with an integer index.
More details on how technical replicates are handled in the ReadqPCR
package vignette
Object of class "qPCRBatch"
.
James Perkins jimrperkins@gmail.com
Perkins, JR, Dawes, JM, McMahon, SB, Bennett, DL, Orengo, C, Kohl, M (2012). ReadqPCR and NormqPCR: R packages for the reading, quality checking and normalisation of RT-qPCR quantification cycle (Cq) data. BMC Genomics, 13, 1:296.
ExpressionSet-class
path <- system.file("exData", package = "ReadqPCR") # read 1 file taqman.example <- file.path(path, "example.txt") qPCRBatch.taq <- read.taqman(taqman.example) # read 2 files taqman.example.second.file <- file.path(path, "example2.txt") qPCRBatch.taq.two.files <- read.taqman(taqman.example, taqman.example.second.file)