how to generate CDF and before normalisation and after normlisation plot for Clariom D
1
0
Entering edit mode
@kritikamish99-9648
Last seen 6.3 years ago
India

Hi

I have certain data for clariom D

i need to generate CDF file also i want before normalisation and after normalisation plots

plots include:-

1)Box plot

2) density

3) MA plot

4) RNA degradation plot

5) NUSE plot

6) RLE plot

7) Heirahcial clustering plot

8) PCA plot

9) Corelation plot

 

Clariom D • 921 views
ADD COMMENT
0
Entering edit mode
Guido Hooiveld ★ 4.1k
@guido-hooiveld-2020
Last seen 2 hours ago
Wageningen University, Wageningen, the …

No, you should not use / generate a CDF to analyze these arrays.

You rather should analyze these type of arrays using the package oligo (link) in combination with the corresponding platform design package (link). In the vignette (PDF) of oligo it is explained how to create the plots you are interested in (plots 1-6). For the other plots you can/should make use of other functions (e.g. hclust, prcomp [both from the default installed R package stats)].

ADD COMMENT

Login before adding your answer.

Traffic: 870 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6