get_peak_logOR: get_peak_logOR
In scottzijiezhang/MeRIPtools: Analyze MeRIP-seq data and QTL calling
View source: R/get_peak_logOR.R
Description
Compute peak logOR, adjust GC bias and IP efficiency for m6A QTL analysis
Usage
1
2
3
get_peak_logOR(MeRIPdata, vcf_file = NULL,
BSgenome = BSgenome.Hsapiens.UCSC.hg19, AdjustGC = TRUE,
AdjIPeffi = TRUE, thread = 1)
Arguments
MeRIPdata
The MeRIP.Peak object containing peak calling result.
vcf_file
The vcf file for genotype. The chromosome position must be sorted!!
BSgenome
The BSgenome object. This needs to match the genome version of the gtf files.
AdjustGC
Logic. Choose whether explicitly adjust GC bias (default: TRUE).
AdjIPeffi
Logic. Choose whether explicitly adjust overall IP efficiency (default: TRUE).
scottzijiezhang/MeRIPtools documentation built on March 27, 2021, 3:04 a.m.
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View source: R/get_peak_logOR.R
Description
Compute peak logOR, adjust GC bias and IP efficiency for m6A QTL analysis
Usage
1 2 3 | get_peak_logOR(MeRIPdata, vcf_file = NULL,
BSgenome = BSgenome.Hsapiens.UCSC.hg19, AdjustGC = TRUE,
AdjIPeffi = TRUE, thread = 1)
|
Arguments
MeRIPdata |
The MeRIP.Peak object containing peak calling result. |
vcf_file |
The vcf file for genotype. The chromosome position must be sorted!! |
BSgenome |
The BSgenome object. This needs to match the genome version of the gtf files. |
AdjustGC |
Logic. Choose whether explicitly adjust GC bias (default: TRUE). |
AdjIPeffi |
Logic. Choose whether explicitly adjust overall IP efficiency (default: TRUE). |
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.
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