CategorizeReads: Categorizes the reads in one sam file.
In steverozen/DBSverify: Analyze Next Generation Sequencing Data to Verify Somatic Double-BaseSubstituion (DBS) Calls
Description
Usage
Arguments
Value
View source: R/CategorizeReads.R
Description
Categorizes the reads in one sam file.
Usage
1
CategorizeReads(sam, POS, REF, ALT)
Arguments
sam
An in-memory version of a sam file as data.frame.
POS
The position in the sam at which the DBS starts.
REF
The reference allele.
ALT
The putative alternative allele.
Value
a named character vector, the names are the read names in the sam file.
Each element is one of
"Read supports only 1st position"
"Read supports only 2nd position",
"WT read"
"Mut read"
@keywords internal
steverozen/DBSverify documentation built on Dec. 23, 2021, 5:34 a.m.
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Description Usage Arguments Value
View source: R/CategorizeReads.R
Description
Categorizes the reads in one sam file.
Usage
1 | CategorizeReads(sam, POS, REF, ALT)
|
Arguments
sam |
An in-memory version of a sam file as data.frame. |
POS |
The position in the sam at which the DBS starts. |
REF |
The reference allele. |
ALT |
The putative alternative allele. |
Value
a named character vector, the names are the read names in the sam file. Each element is one of "Read supports only 1st position" "Read supports only 2nd position", "WT read" "Mut read"
@keywords internal
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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