Sentence examples for using the rma method from inspiring English sources
Fig. 4 Disparity image produced using the RMA method.
The data were preprocessed and normalized using the RMA method in affy package [45].
The data was generated by the Hippocampus Consortium on M430 arrays using hippocampus tissue and analyzed using the RMA method.
Affymetrix data were normalized using the RMA method and the linear model for microarray data (LIMMA) package was used to assess statistical significance between groups.
The calculation of expression values from probe intensities and normalization of arrays was performed using the RMA method [78] using Bioconductor and RMAexpress [79] (accessed 2006).
The distribution is similar for all AtGenExpress data sets, with the exception of the "Development RMA" data set, which was normalized using the RMA method [16] and not the Affymetrix MAS5.0/GCOS method with a target value of 100.
Using the "affy" package from the R Bioconductor software [22], probe set expression levels (a probe set is a group of oligonucleotide probes designed to detect the expression of single gene) were calculated using the "rma" (robust multichip average) method, which includes log transformation of expression levels and quantile normalization.
To generate dot plots, data were pre-processed using the RMA (Robust Multichip Average) method, quantile normalised and intensity estimate values were averaged for all probes for a given gene.
Briefly, data were pre-processed using the RMA (Robust Multichip Average) method, before fitting a linear model and applying Bayesian smoothing to identify differentially expressed genes between the normal and cancer samples.
Gene expression values (i.e., gene intensity value) were obtained from a summarization of intensity values of all corresponding probes using the RMA (Robust Multi-array Average) method.
The downloaded profile had been preprocessed which was carried out with background correction, log2 transformation, and quantile normalization using the RMA (Robust Multi-array Analysis) method of affy package in R [ 13].
