getLinks: Search for links in Hi-C read pairs
In daewoooo/CrossLinkR: R package to search for crosslinks in Hi-C data
Description
Usage
Arguments
Author(s)
Description
Search for links in Hi-C read pairs
Usage
1
2
getLinks(reads, hap.gr, outputfolder, tmpDIR, readLen = 100, min.mapq = 10,
min.baseq = 20, ID = "")
Arguments
reads
An GRanges object containing read-pairs sorted by name.
hap.gr
An GRanges object containing phased SNVs used as a reference
readLen
Length of the read in bp.
min.mapq
Minimum mapping quality of any given read.
min.baseq
Minimum base quality to consider SNV for crosslink.
ID
Unique identifier for the analysis. (Default: Bamfile name)
Author(s)
David Porubsky
daewoooo/CrossLinkR documentation built on March 7, 2020, 10:34 p.m.
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Description Usage Arguments Author(s)
Description
Search for links in Hi-C read pairs
Usage
1 2 | getLinks(reads, hap.gr, outputfolder, tmpDIR, readLen = 100, min.mapq = 10,
min.baseq = 20, ID = "")
|
Arguments
reads |
An |
hap.gr |
An |
readLen |
Length of the read in bp. |
min.mapq |
Minimum mapping quality of any given read. |
min.baseq |
Minimum base quality to consider SNV for crosslink. |
ID |
Unique identifier for the analysis. (Default: Bamfile name) |
Author(s)
David Porubsky
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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