prep_ascat_t: Prepare input files for ASCAT tumor only samples
In CompEpigen/ezASCAT: Conveniently perform ASCAT copy-number analysis in R
Description
Usage
Arguments
Value
Description
Prepare input files for ASCAT tumor only samples
Usage
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prep_ascat_t(
t_counts = NULL,
sample_name = NA,
min_depth = 30,
PLATFORM = "AffySNP6"
)
Arguments
t_counts
read counts from tumor generated by get_counts
sample_name
Sample name. Used as a basename for output files. Default NA, parses from t_counts file.
min_depth
Min read depth required to consider a marker. Default 30
PLATFORM
Default AffySNP6. Only change if you have used custom loci. See here for available options https://www.crick.ac.uk/research/labs/peter-van-loo/software
Value
An ascat.loadData object; ascat data structure
CompEpigen/ezASCAT documentation built on Dec. 17, 2021, 3:04 p.m.
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Description Usage Arguments Value
Description
Prepare input files for ASCAT tumor only samples
Usage
1 2 3 4 5 6 | prep_ascat_t(
t_counts = NULL,
sample_name = NA,
min_depth = 30,
PLATFORM = "AffySNP6"
)
|
Arguments
t_counts |
read counts from tumor generated by |
sample_name |
Sample name. Used as a basename for output files. Default NA, parses from t_counts file. |
min_depth |
Min read depth required to consider a marker. Default 30 |
PLATFORM |
Default AffySNP6. Only change if you have used custom loci. See here for available options https://www.crick.ac.uk/research/labs/peter-van-loo/software |
Value
An ascat.loadData object; ascat data structure
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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