diagnostic: Helps identifying parameters for scRT analysis. It opens a...
In CL-CHEN-Lab/User_interface_for_Kronos_scRT: R-package and Shiny App interface for the analysis of single cell replication timing data
diagnostic R Documentation
Helps identifying parameters for scRT analysis. It opens a shiny app
Description
Helps identifying parameters for scRT analysis. It opens a shiny app
Usage
diagnostic(
PerCell,
interactive = T,
min_RPMPH = 160,
G1G2_th = NULL,
S_th = NULL,
First_half_factor = NULL,
Second_half_factor = NULL,
Automatic_correction = F,
lunch.in.Rstudio = F,
cores = 1
)
Arguments
PerCell,
per cell dataframe from CallCNV
interactive,
if TRUE the function will start a shiny app
min_RPMPH,
min number of reads per megabase per haplotype for a cell to be considered
G1G2_th,
variability value under which cells are considered in G1/G2
S_th,
variability value above which cells are considered in S
First_half_factor,
parameter to adjust the first part of the S-phase
Second_half_factor,
parameter to adjust the second part of the S-phase
Automatic_correction,
If TRUE it tries to automatically find the parameters to adjust the S-phase
lunch.in.Rstudio,
if TRUE the shiny app is run in Rstudio otherwise on a browser.
cores,
number of cores to parallelise
Value
list
CL-CHEN-Lab/User_interface_for_Kronos_scRT documentation built on Aug. 1, 2022, 2:08 p.m.
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| diagnostic | R Documentation |
Helps identifying parameters for scRT analysis. It opens a shiny app
Description
Helps identifying parameters for scRT analysis. It opens a shiny app
Usage
diagnostic( PerCell, interactive = T, min_RPMPH = 160, G1G2_th = NULL, S_th = NULL, First_half_factor = NULL, Second_half_factor = NULL, Automatic_correction = F, lunch.in.Rstudio = F, cores = 1 )
Arguments
PerCell, |
per cell dataframe from CallCNV |
interactive, |
if TRUE the function will start a shiny app |
min_RPMPH, |
min number of reads per megabase per haplotype for a cell to be considered |
G1G2_th, |
variability value under which cells are considered in G1/G2 |
S_th, |
variability value above which cells are considered in S |
First_half_factor, |
parameter to adjust the first part of the S-phase |
Second_half_factor, |
parameter to adjust the second part of the S-phase |
Automatic_correction, |
If TRUE it tries to automatically find the parameters to adjust the S-phase |
lunch.in.Rstudio, |
if TRUE the shiny app is run in Rstudio otherwise on a browser. |
cores, |
number of cores to parallelise |
Value
list
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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