# CytoTrol_CytoTrol_3.fcs CytoTrol_CytoTrol_3.fcs C2_Tcell # CytoTrol_CytoTrol_2.fcs CytoTrol_CytoTrol_2.fcs C2_Tcell # CytoTrol_CytoTrol_1.fcs CytoTrol_CytoTrol_1.fcs C2_Tcell , subset = `EXPERIMENT NAME` = "C2_Tcell" gs <- flowjo_to_gatingset(ws, name = 4, execute = FALSE, additional.keys = NULL Note that the columns referred by the expression must also be explicitly specified in ‘keywords’ argument, which we will cover in the later sections.Į.g. Or an that is similar to the one passed to ‘base::subset’ function to filter a ame. gs <- flowjo_to_gatingset(ws, name = 4, execute = FALSE, additional.keys = NULL, subset = c("CytoTrol_CytoTrol_3.fcs")) Or the vector of sample (FCS) names, e.g. SampleNames(gs) # "CytoTrol_CytoTrol_1.fcs" "CytoTrol_CytoTrol_2.fcs" gs <- flowjo_to_gatingset(ws, name = 4, execute = FALSE, additional.keys = NULL, subset = 1:2)
FLOWJO 10 VS FLOWJO 9 UPDATE
Subset argument takes numeric indies, e.g. Treestar FlowJo 10.6.2 Lumion Pro 11.0.1.9 MathWorks MATLAB R2021a update OriginPro 2021 v9.8.0.200 圆4. Sometime it is useful to only select a small subset of samples to import to quickly test or review the content of gating tree instead of waiting for the entire data set to be completed, which could take longer time if the total number of samples is big. gs_pop_get_data(gs) # Error in y): gate is not parsed! Otherwise it will display the value computed from FCS file, which will be NA in this case since we didn’t load FCS files.Īpparently, it is very fast to only import xml, but data won’t be available for retrieving. Note that xml flag needs to be set in order to tell it to return the stats from xml file. # stop("'deriv' must be between 0 and 3")Īnd stats head(gs_pop_get_stats(gs, xml = TRUE)) # sample pop count Transformations gh_get_transformations(gs], channel = "B710-A") # function (x, deriv = 0) # Compensation object 'defaultCompensation': # Ellipsoid gate 'CD3+' in dimensions and SSC-AĬompensations gs_get_compensations(gs) # $CytoTrol_CytoTrol_1.fcs_119531 Director of Science and Product Development BDB Informatics (FlowJo). It is possible to only import the gating structure without reading the FCS data by setting execute flag to FALSE. Intro to FlowJo version 10 for version 9 users.