getParameters: Get parameters from FCS files

In oneSENSE: One-Dimensional Soli-Expression by Nonlinear Stochastic Embedding (OneSENSE)

Description

Get parameters from FCS files

Usage

getParameters(rawFCSdir)

Arguments

rawFCSdir

FCS path

Value

mid

Examples

#remove hash to run
dir3 <- system.file('extdata/fcs', package = 'oneSENSE')
getParameters(dir3)

Example output

Loading required package: webshot
Loading required package: shiny
Loading required package: shinyFiles
Loading required package: scatterplot3d
$markers
 [1] "<Time>:NA"             "<Event_length>:NA"     "<Y89Di>:CD45"         
 [4] "<Rh103Di>:DNA"         "<Pd104Di>:BC"          "<Pd105Di>:BC"         
 [7] "<Pd106Di>:BC"          "<Pd108Di>:BC"          "<Pd110Di>:BC"         
[10] "<Cd112Di>:CD14_1"      "<In113Di>:BC"          "<Cd114Di>:CD14_2"     
[13] "<In115Di>:CD57"        "<La139Di>:Va7.2"       "<Ce140Di>:CD3"        
[16] "<Pr141Di>:IFN-g"       "<Nd142Di>:CD8"         "<Nd143Di>:GrzB"       
[19] "<Nd144Di>:CD45RA"      "<Nd145Di>:CD27"        "<Nd146Di>:MIP1b"      
[22] "<Pm147Di>:TNF-a"       "<Nd148Di>:CD28"        "<Sm149Di>:IL-2"       
[25] "<Nd150Di>:KLRG1"       "<Eu151Di>:CCR7"        "<Sm152Di>:Perforin"   
[28] "<Eu153Di>:CXCR5"       "<Sm154Di>:CD45RO"      "<Gd155Di>:CTLA-4"     
[31] "<Gd156Di>:CD39"        "<Gd157Di>:IL-8"        "<Gd158Di>:CD107a"     
[34] "<Tb159Di>:ICOS"        "<Gd160Di>:PD-1"        "<Dy161Di>:MIP1a"      
[37] "<Dy162Di>:CD4CD19CD56" "<Dy163Di>:IL-10"       "<Dy164Di>:CD62L"      
[40] "<Ho165Di>:CD40L"       "<Er166Di>:CD38"        "<Er167Di>:GrzA"       
[43] "<Er168Di>:CXCR3"       "<Tm169Di>:CXCR1"       "<Er170Di>:CXCR4"      
[46] "<Yb171Di>:CXCR6"       "<Yb172Di>:GM-CSF"      "<Yb173Di>:CCR4"       
[49] "<Yb174Di>:CCR6"        "<Lu175Di>:CCR5"        "<Lu176Di>:CD127"      
[52] "<Ir191Di>:CD161_1"     "<Ir193Di>:CD161_2"     "<Pt195Di>:Cisplatin"  
[55] "<Length>:NA"          

$markers_desc
         $P1S          $P2S          $P3S          $P4S          $P5S 
           NA            NA        "CD45"         "DNA"          "BC" 
         $P6S          $P7S          $P8S          $P9S         $P10S 
         "BC"          "BC"          "BC"          "BC"      "CD14_1" 
        $P11S         $P12S         $P13S         $P14S         $P15S 
         "BC"      "CD14_2"        "CD57"       "Va7.2"         "CD3" 
        $P16S         $P17S         $P18S         $P19S         $P20S 
      "IFN-g"         "CD8"        "GrzB"      "CD45RA"        "CD27" 
        $P21S         $P22S         $P23S         $P24S         $P25S 
      "MIP1b"       "TNF-a"        "CD28"        "IL-2"       "KLRG1" 
        $P26S         $P27S         $P28S         $P29S         $P30S 
       "CCR7"    "Perforin"       "CXCR5"      "CD45RO"      "CTLA-4" 
        $P31S         $P32S         $P33S         $P34S         $P35S 
       "CD39"        "IL-8"      "CD107a"        "ICOS"        "PD-1" 
        $P36S         $P37S         $P38S         $P39S         $P40S 
      "MIP1a" "CD4CD19CD56"       "IL-10"       "CD62L"       "CD40L" 
        $P41S         $P42S         $P43S         $P44S         $P45S 
       "CD38"        "GrzA"       "CXCR3"       "CXCR1"       "CXCR4" 
        $P46S         $P47S         $P48S         $P49S         $P50S 
      "CXCR6"      "GM-CSF"        "CCR4"        "CCR6"        "CCR5" 
        $P51S         $P52S         $P53S         $P54S         $P55S 
      "CD127"     "CD161_1"     "CD161_2"   "Cisplatin"            NA 

oneSENSE documentation built on Nov. 8, 2020, 4:58 p.m.