adjustTcellExTRECT: Adjust TCRA T cell fraction based on tumour purity and copy...
In McGranahanLab/TcellExTRECT: T cell Exome TREC Tool
View source: R/adjustTcellExTRECT.R
adjustTcellExTRECT R Documentation
Adjust TCRA T cell fraction based on tumour purity and copy number
Description
Adjust TCRA T cell fraction based on tumour purity and copy number
Usage
adjustTcellExTRECT(TCRA.out, purity, TCRA.cn, trustPurity = TRUE)
Arguments
TCRA.out
Output of runTcellExTRECT
purity
Tumour purity, between 0 and 1
TCRA.cn
Tumour copynumber at TCRA locus
trustPurity
If lower CI of TCRA score > 1 - purity assume tumour copy number is wrong and instead assume 2
Value
data frame of TCRA scores with purity/copy number adjusted outputs
McGranahanLab/TcellExTRECT documentation built on Jan. 10, 2025, 11:04 p.m.
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View source: R/adjustTcellExTRECT.R
| adjustTcellExTRECT | R Documentation |
Adjust TCRA T cell fraction based on tumour purity and copy number
Description
Adjust TCRA T cell fraction based on tumour purity and copy number
Usage
adjustTcellExTRECT(TCRA.out, purity, TCRA.cn, trustPurity = TRUE)
Arguments
TCRA.out |
Output of runTcellExTRECT |
purity |
Tumour purity, between 0 and 1 |
TCRA.cn |
Tumour copynumber at TCRA locus |
trustPurity |
If lower CI of TCRA score > 1 - purity assume tumour copy number is wrong and instead assume 2 |
Value
data frame of TCRA scores with purity/copy number adjusted outputs
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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