filterCounts: Filter low expression genes, using independent filtering...
In kokrah/cbcbSEQ: RNAseq analysis pipeline for UMD CBCB collaborators with batch effect assessment and correction
Description
Usage
Arguments
Value
Description
Filter low expression genes, using independent filtering
recommended in Nature Protocols paper
Usage
1
filterCounts(counts, lib.size = NULL, thresh = 1, minSamples = 2)
Arguments
counts
Count matrix
lib.size
library sizes, if missing or sum uses the total counts per samples
thresh
Minimum counts per million to determine expression
minSamples
Minimum number of samples where gene is required to be expressed. This should be set to the numer of samples in the smallest group of interest.
Value
Filtered count matrix
kokrah/cbcbSEQ documentation built on May 18, 2017, 10:41 p.m.
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Description Usage Arguments Value
Description
Filter low expression genes, using independent filtering recommended in Nature Protocols paper
Usage
1 | filterCounts(counts, lib.size = NULL, thresh = 1, minSamples = 2)
|
Arguments
counts |
Count matrix |
lib.size |
library sizes, if missing or sum uses the total counts per samples |
thresh |
Minimum counts per million to determine expression |
minSamples |
Minimum number of samples where gene is required to be expressed. This should be set to the numer of samples in the smallest group of interest. |
Value
Filtered count matrix
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
As an Amazon Associate I earn from qualifying purchases.
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