getSignInteractions: Get significant interactions from a GRangesList
In Pasquali-lab/UMI4Cats: UMI4Cats: Processing, analysis and visualization of UMI-4C chromatin contact data
View source: R/callInteractions.R
getSignInteractions R Documentation
Get significant interactions from a GRangesList
Description
Retrieves all significant interactions from the output of
callInteractions.
Usage
getSignInteractions(gr_interactions)
Arguments
gr_interactions
GRangesList outputed by callInteractions.
Value
GRanges object with a list of significantly interacting regions.
Examples
data("ex_ciita_umi4c")
umi <- ex_ciita_umi4c
win_frags <- makeWindowFragments(umi, n_frags=8, sliding=1)
gr <- callInteractions(umi, ~condition, win_frags, padj_threshold = 0.01, zscore_threshold=2)
inter <- getSignInteractions(gr)
Pasquali-lab/UMI4Cats documentation built on Nov. 3, 2024, 3:10 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/callInteractions.R
| getSignInteractions | R Documentation |
Get significant interactions from a GRangesList
Description
Retrieves all significant interactions from the output of
callInteractions.
Usage
getSignInteractions(gr_interactions)
Arguments
gr_interactions |
GRangesList outputed by |
Value
GRanges object with a list of significantly interacting regions.
Examples
data("ex_ciita_umi4c")
umi <- ex_ciita_umi4c
win_frags <- makeWindowFragments(umi, n_frags=8, sliding=1)
gr <- callInteractions(umi, ~condition, win_frags, padj_threshold = 0.01, zscore_threshold=2)
inter <- getSignInteractions(gr)
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.