Hi, I wish create a covariate file as input for MutSigCV, using expression values from a specific gene expression data set. Someone knows how to do this? Moreover, analyzing the covariate file provided by the author of the software, in the Example Data, i noted that the global expression values are represented by numbers that I cannot understand.
i.e.:
gene expr reptime hic
A1BG 1621097 406 -25
A1CF 113129 613 19*
What do those numbers mean? Are they microarray expr values? Or are they values from some RNAseq conversions (FPKM or RPKM) ? Someone knows what exactly means "1621097" for the A1BG gene, and "113129" for the A1CF? Digging in the MutSigCV documentation I haven't found explanations about that. Thank you, Luca.
0 answers
No answers yet.
Log in to answer this question.
-
Tutorial: Bulk RNA-seq: Batch correction in Bulk RNA-seq or microarray data
written by Julia Ma •
-
Accounting for differential abundance in differential expression in scRNAseq
written by Giuseppe •
-
In Enrichr: What is "Gene weight" or "levels of membership"?
written by chrisgr •
-
txt normalized in r
written by Joe Kherery
-
Correlation between methylation's regression values and Gene expression's logFC
written by Bioinformatist Newbie
-
How to calculate a % difference change in gene expression from a linear regression.
written by Tom •
-
varianceStabilizingTransformation() of FPKM data, count data unavailable
written by KRR •
-
[DESeq2] time series analysis. Linear and squared model
written by john •
Having the same question here, did you find out where this value comes from?