johrpan/geposan
1
0
Fork 0
mirror of https://github.com/johrpan/geposan.git synced 2025-10-26 10:47:25 +01:00
Code Issues Projects Releases Packages Wiki Activity Actions

analyze: Add optimization

Browse source
This commit is contained in:
Elias Projahn 2021-11-19 15:07:15 +01:00
parent b018838d37
commit 5a58f457a4
5 changed files with 63 additions and 32 deletions
Download patch file Download diff file Expand all files Collapse all files

13
man/preset.Rd
View file

@ -9,7 +9,8 @@ preset(
"correlation_positions", "neural", "neural_positions", "proximity"),
species_ids = NULL,
gene_ids = NULL,
reference_gene_ids = NULL
reference_gene_ids = NULL,
optimization_target = "mean_rank"
)
}
\arguments{
@ -20,6 +21,9 @@ preset(
\item{gene_ids}{IDs of genes to screen.}
\item{reference_gene_ids}{IDs of reference genes to compare to.}
\item{optimization_target}{Parameter of the reference genes that the ranking
should be optimized for.}
}
\value{
The preset to use with \code{\link[=analyze]{analyze()}}.
@ -47,4 +51,11 @@ telomere across species.
position data.
\item \code{proximity} Mean proximity to telomeres.
}
Available optimization targets are:
\itemize{
\item \code{mean} Mean rank of the reference genes.
\item \code{max} First rank of the reference genes.
\item \code{min} Last rank of the reference genes.
}
}