performing PCA by R
Hello Everyone ,i want to create PCA fifure for RNA seq , i don't know how i can perform it by R and i don't which type of reads i used the normalized value or the row data
Thanks
• 1,306 views
•
link
updated
by
brunobsouzaa
•
written
by
heba.m.elseedy •
•
written
by
heba.m.elseedy •
3 answers
@Kevin has a nice package available: https://github.com/kevinblighe/PCAtools
Thread with info: A: PCA plot from read count matrix from RNA-Seq
?prcomp
Also this tutorial.
• 0 views
•
link
written
by
Jean-Karim Heriche
DESeq2 has a plotPCA function, take a look here
• 0 views
•
link
written
by
brunobsouzaa
Log in to answer this question.
More posts like this
-
How can I normalize miRNA read count from TCGA
written by Fluke •
-
Right assay and slot for the extraction of normalized data after "sct normalization" and "anchor b…
written by Omics data mining
-
How do I go from TPM to PCA (rna-seq)?
written by biotrekker •
-
Which file and data structure is used to create volcano plot from scRNA-Seq experiment?
written by Chris •
-
How to perform differential expression on proteomics data?
written by lenC_biotecLover •
-
Quantile Normalization in R
written by KVC_bioinfo
-
PCA plot from read count matrix from RNA-Seq
written by rachel.kubik12 •
-
Principle component analyses PCA
written by saj98
-
Log transformation of RPKM data for PCA analysis
written by AB
-
PCA plot of RPKM data from RNA-Seq dataset
written by AB
