Microarray
Can anybody provide me with the R code for differential gene expression analysis using edgeR and DESeq.
r
bioconductor
edger
deseq
• 1,791 views
•
link
written
by
shaikhfarahdeeba •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Gene Ontology for the species Malus domestica
written by sangi •Hi all, I mapped my reads using STAR and have feature counts. In R, I am using edgeR, limma, and voom for differential expression analysis. …
-
What's the difference between DESeq and EdgeR?
written by Novogene •I have one question about the RNA-seq analysis software and pipeline. What's the best analysis software for gene differential expression? What's the difference between DESeq …
-
differential gene expression analysis
written by ATCGI'm trying to do differential gene expression analysis (RNA-Seq data) using Limma and EdgeR How can I adjust my count matrix for technical confounders(RIN, batch)? …
-
Protocols (workflow) for differential gene expression analysis of de novo assembled transcriptomes
written by lidanqing1990 •Dear all, I am new for bioinformatics and feel very confusing about differential gene expression analysis for de novo assembled transcriptomes. I knew Tophat +Cufflinks …
-
Differential expression of microRNA with no replicates
written by Saad Khan<p>Hi,</p> <p>Various differential expression analysis packages for RNA-seq (like edgeR and DEseq) provide support for analysis when there is no replicate available. I was wondering …
-
Regarding Differential Gene Expression Analysis
written by shaikhfarahdeeba •<p>Hi,I have done differential gene expression analysis using limma,then did gene set enrichment analysis and annotation now i have to do clustering of genes and …
-
No Go Terms For Genes When Using The Gostat Package In Bioconductor
written by shaikhfarahdeeba •<p>Hi can anybody plz help me regarding differential gene expression analysis i m using a dataset of affymetrix hgu133plus2 and carried out analysis using limma …
-
Normalization Of Rna Sequencing Counts (By Ercc / Gene Length)
written by Sam<p>There are now a lot of ways to perform RNA Sequencing count normalization and most tools are available. However, do you guys think that gene …
-
Deseq, Edger And Cuffdiff - Different Result
written by Nicolas Rosewick<p>Hi,</p> <p>I performed differential expression analysis with DESeq, edgeR and cuffdiff on my data. Surprisingly, there are differences between DESeq, edgeR and cuffdiff. Here's a …
-
Edger Differential Expression
written by Arun<p>Hi,</p> <p>I have RNA-Seq data from time point experiments: T0 and T1, each with 3 replicates for no-treatment (condition1) and with-treatment (condition2). That is, 3 …
edgeR and DESeq are not for MA analysis. If you want to see example code, please read the fine package
vignette()e.g. for limma.What is "MA"? Both edgeR and DESeq are used for differential gene expression analysis.
microarray, as in the title
Right, I did not even notice the title, it was so short and uninformative :)