Data Analysis creating flow set
I am new to data analysis in R .
I would like to use the package HDCytoData.
1. How to create the flowset object so that it would include the panel columns eg. Y89Di Pr141Di together with metadata file columns eg. group_id patient_id sample_id population_id?
2. So far I did create the flowset with 'read.flowSet' function.
When I check if all panel columns are in the flowSet object with
all(panel$fcs_colname %in% colnames(fs)) i get FALSE.
However,
> colnames(fs)
[1] "Y89Di" "Pr141Di" "Nd142Di" "Nd143Di" "Nd144Di" "Nd146Di" "Sm147Di" "Nd148Di" "Sm149Di"
[10] "Nd150Di" "Eu151Di" "Sm152Di" "Eu153Di" "Sm154Di" "Gd155Di" "Gd156Di" "Tb159Di" "Gd160Di"
[19] "Dy162Di" "Dy163Di" "Dy164Di" "Ho165Di" "Er166Di" "Er168Di" "Tm169Di" "Yb171Di" "Yb172Di"
[28] "Yb173Di" "Yb176Di" "Bi209Di"
> panel$fcs_colname
[1] "Y89Di" "Pr141Di" "Nd142Di" "Nd143Di" "Nd144Di" "Nd146Di" "Sm147Di" "Nd148Di" "Sm149Di"
[10] "Nd150Di" "Eu151Di" "Sm152Di" "Sm153Di" "Sm154Di" "Gd155Di" "Gd156Di" "Tb159Di" "Gd160Di"
[19] "Dy162Di" "Dy163Di" "Dy164Di" "Ho165Di" "Er166Di" "Er168Di" "Tm169Di" "Yb171Di" "Yb172Di"
[28] "Yb173Di" "Yb176Di" "Bi209Di"
I dont understand why, and how it shall be changed..