hello everyone,
I want to determine p-value for lncRNA according to Fisher’s exact test,but I cannot understand what should I do?which parameter should I use?
(I have some differential expression gene of some experiments for lncRNA)
anyone can help me?
I read the article of (Identification of long non-coding RNAs involved in neuronal development and intellectual disability) "doi:10.1038/srep28396 " which use this test for determine p-value.
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written
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Edalat •
1 answer
I would suggest adopting a more standard approach such as edgeR, DESeq2, or limma voom. All of these are available from Bioconductor, are well-supported, have good documentation, and represent state-of-the-art approaches to testing for differential expression in RNA-seq. If you have something other than RNA-seq as your input data, please update your question with details.
Then this guide (and many other) might be of interest: http://www.bioconductor.org/help/workflows/rnaseqGene/
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