callTMB: Perform Tumor Mutational Burden (TMB) quantification
In acc-bioinfo/TMBleR: Tumor Mutational Burden Quantification From Gene Panels And WES
Description
Usage
Arguments
Value
Author(s)
Description
This function counts the total number of mutations in the object provided in
input with variants. It gives in output both the total number of mutations and
the number of mutations per Mb (dividing by the sequenced genomic space,
extracted from the sequencing design).
Usage
1
callTMB(inputForTMB, genome)
Arguments
inputForTMB
a list with the following elements: sample name,
filter description, design and a CollapsedVCF or data.frame
object containing somatic variants
genome
human genome assembly: hg19 or hg38
Value
Returns a table with sample name, filter description, size of
the sequenced genomic space and TMB expressed both as total number of
mutations in the sequenced space and number of mutations per megabase
Author(s)
Laura Fancello
acc-bioinfo/TMBleR documentation built on Dec. 18, 2021, 10:21 p.m.
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Description Usage Arguments Value Author(s)
Description
This function counts the total number of mutations in the object provided in input with variants. It gives in output both the total number of mutations and the number of mutations per Mb (dividing by the sequenced genomic space, extracted from the sequencing design).
Usage
1 | callTMB(inputForTMB, genome)
|
Arguments
inputForTMB |
a |
genome |
human genome assembly: hg19 or hg38 |
Value
Returns a table with sample name, filter description, size of
the sequenced genomic space and TMB expressed both as total number of
mutations in the sequenced space and number of mutations per megabase
Author(s)
Laura Fancello
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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