Example Analysis of unstandardized data Distribution in affymetrix Chip

This article shares with you the content of an example analysis of unstandardized data distribution on affymetrix chips. The editor thinks it is very practical, so share it with you as a reference and follow the editor to have a look.

To obtain the original data of the chip and get the standardized data, we need to check the distribution of the original data, and we can obtain the distribution picture through a variety of methods.

Take affy package ReadyAffy () to read CEL result: AffyBatch object as an example (GSE66196)

1. Box chart: based on boxplot view, after loading affy, you can use boxplot to directly access AffyBatchd

N.sample = length (AffyBatch$sample) cols = rainbow (n.sample) par (cex = 0.7) if (n.sample > 40) par (cex = 0.5) boxplot (AffyBatch,col = cols, las = 2)

2. Hist curve, which is similar to boxplot. After loading affy, you can draw directly.

> SampleNames [1] "GSM1616746", "GSM1616747", "GSM1616748", "GSM1616749", "GSM1616750" [6], "GSM1616751", "GSM1616752", "GSM1616753", "GSM1616754", "GSM1616755" [11] "GSM1616756", "GSM1616757" par (cex=0.7) if (n.sample > 40) par (cex= 0.5) hist (AffyBatch,col = cols, las = 1jinltype1) legend ("topright", legend = SampleNames,col=cols,lty=1,box.lty=0,bg=NA) Thank you for reading! This is the end of this article on "sample analysis of unstandardized data distribution on affymetrix chips". I hope the above content can be of some help to you, so that you can learn more knowledge. if you think the article is good, you can share it for more people to see!