enrichAnnoOverlap: enrichAnnoOverlap
In GuangchuangYu/ChIPseeker: ChIPseeker for ChIP peak Annotation, Comparison, and Visualization
View source: R/enrichOverlap.R
enrichAnnoOverlap R Documentation
enrichAnnoOverlap
Description
calcuate overlap significant of ChIP experiments based on their nearest gene annotation
Usage
enrichAnnoOverlap(
queryPeak,
targetPeak,
TxDb = NULL,
pAdjustMethod = "BH",
chainFile = NULL,
distanceToTSS_cutoff = NULL
)
Arguments
queryPeak
query bed file
targetPeak
target bed file(s) or folder containing bed files
TxDb
TxDb
pAdjustMethod
pvalue adjustment method
chainFile
chain file for liftOver
distanceToTSS_cutoff
restrict nearest gene annotation by distance cutoff
Value
data.frame
Author(s)
G Yu
GuangchuangYu/ChIPseeker documentation built on May 17, 2024, 1:31 p.m.
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.
View source: R/enrichOverlap.R
| enrichAnnoOverlap | R Documentation |
enrichAnnoOverlap
Description
calcuate overlap significant of ChIP experiments based on their nearest gene annotation
Usage
enrichAnnoOverlap(
queryPeak,
targetPeak,
TxDb = NULL,
pAdjustMethod = "BH",
chainFile = NULL,
distanceToTSS_cutoff = NULL
)
Arguments
queryPeak |
query bed file |
targetPeak |
target bed file(s) or folder containing bed files |
TxDb |
TxDb |
pAdjustMethod |
pvalue adjustment method |
chainFile |
chain file for liftOver |
distanceToTSS_cutoff |
restrict nearest gene annotation by distance cutoff |
Value
data.frame
Author(s)
G Yu
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.