deseq2: DESeq2 Differential Analysis
In Coraline66/Deseq: DESeq2 Gene Differential Analysis

Description Usage Arguments Value Examples

This function performs DESeq2 gene differential analysis to htseq counts files.

1	deseq2(n, i, samp = matrix(), datatype)

`n`	integer. The number of samples for subsequent analysis. Note that n equals 2 times the number of columns of matrix samp for datatype "luad" & "brca", while it equals the number of columns of matrix samp for datatype "sarc".
`i`	integer. The row index of matrix samp which is obtained from the first-step or second-step resampling. Any integer is acceptable if an analysis for the entire sample group is performed.
`samp`	matrix obtained from first-step or second-step resampling. It can be set as an empty matrix if analysis for the entire sample group is desired.
`datatype`	character indicating which type of data is involved. "luad", "brca" or "sarc".

a list consisted of the result of DESeq2 analysis and filtered gene list. A criterion of abs(log2-FoldChange) > 1 and adjusted P-value < 0.05 is utilized during the filtering process.