68th Tokyo.R Beginner session1

Transcript

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    @kilometer BeginneR Session 1 -- Data

   Import / Export -- 2018.03.03 at Shiodome
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   Who
    
   

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   Who   @kilometer  Postdoc (Ph.D engineering)  

   Animal Behavior Neuro Imaging Medical Engineering R ~ 10 years?  : 
   
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   BeginneR Session

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   Before After BeginneR Session
   
   

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   Input Output Today’s talk ? ? Table data Image data

   Other formats Introduction Summary
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   !   #      $"

      
    $    $ 
     
   
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    #  %       &$

     
    ! & ! & 
     "
          
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    Input Output Do NOT start from here

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    Input Output Do NOT start from here Whatever …

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    Input Output Do NOT start from here Whatever … 1

    2 3
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    Input Output Today’s talk ? ?

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    Integrated Development Environment RStudio https://www.rstudio.com/ !

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    Integrated Development Environment RStudio https://www.rstudio.com/

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    RStudio

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    Projects RStudio

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    RStudio > Project .H21474836474<: G RStudio 7@
    ,R&-%("#+!')0FC ,')JA!3? ,')6=!("#+!3<

    RStudio!E1  
    ฤू్தͷ಺༰Λอ࣋  D5921474836472R*-$-QOL!;8/ 
    BI >   34UVEJPͬͯͳΜͩʁ 1SPKFDUͬͯͳΜͩ !XBLVUFLB https://qiita.com/wakuteka/items/9599bb0a8985d98928d7
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    RStudio > Project R   +(  .'"& 

    #%"$ RStudio)!  
    *- , #%"&   34UVEJPͬͯͳΜͩʁ 1SPKFDUͬͯͳΜͩ !XBLVUFLB https://qiita.com/wakuteka/items/9599bb0a8985d98928d7
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    File > New Project… > New Directory > New Project

    hogehoge
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    hogehoge ~/Documents/R hogehoge.Rproj .Rproj.user Project Root Directory Double click!! .RData

    .Rhistory Auto saved project information Open project New!!
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    ~/Documents/R project1 project2 project3 project4

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    Input Output Today’s talk ? ? Table data Image data

    Other formats Summary Introduction
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    Table format data Table data Image data Other formats Introduction

    Summary
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    Table format data Comma-separated values (.csv) Tab-separated values (.tsv) Space-SV

    Semicolon-SV … Delimiter-separated values or Character-SV
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     Import Table format

    data object assignment operator file path function
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     Import Table format

    data object assignment operator file path function
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    ~/Documents/ import.txt  data 
        

          
        or 1. set working directory 2. then use relative path Method②: use absolute path Method ① Import Table format data
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    # # Method②: use absolute path Method ①: setwd –

    relative path " # or
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    prj ~/Documents/R prj.Rproj import.txt Default working directory (project root) 

     
         can use relative path without  
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     Import Table format data

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     Import Table format data 
    

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    ) ! ( ) ! ! ( ) ∖ #

    " !( !! ! (( # ! (( # ! (( # " ( ! # " ( ( ( () # ( ( ) ( # () # ( ! ! (( ( # ( ( # " ( !! ! # ! # ( ( () ) ! # ! # ( ( "" #) !! ( ( ! ( () # ( ( ) ( !) () # ( ( ) ( ! # # # # # # # ) ,) ( ! Import Table format data
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    ) ! ( ) ! ! ( ) ∖ #

    " !( !! ! (( # ! (( # ! (( # " ( ! # " ( ( ( () # ( ( ) ( # () # ( ! ! (( ( # ( ( # " ( !! ! # ! # ( ( () ) ! # ! # ( ( "" #) !! ( ( ! ( () # ( ( ) ( !) () # ( ( ) ( ! # # # # # # # ) ,) ( ! Import Table format data
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     Usage read.table(file, skip = 0, header = FALSE,

    nrows = -1, row.names, fileEncoding = "") Import Table format data
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    cf. R-Tips: 40. 
       http://cse.naro.affrc.go.jp/takezawa/r-tips/r/40.html
     

    
     
      
    
    
    
    
    
    
    
    
     
    
    
    
    
    
    
    
    
     
    
    
    
    
    
    
    
    
     
    
    
    
    
    
    
    
    
    
    
    
    
    
    
    
    
    
    
     Import Table format data
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    " " " " " cf. R-Tips: 40. 
    

      http://cse.naro.affrc.go.jp/takezawa/r-tips/r/40.html Import Table format data
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    " " " " " cf. R-Tips: 40. 
    

      http://cse.naro.affrc.go.jp/takezawa/r-tips/r/40.html Import Table format data
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    " " " " " cf. R-Tips: 40. 
    

      http://cse.naro.affrc.go.jp/takezawa/r-tips/r/40.html Import Table format data
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    " " " " " cf. R-Tips: 40. 
    

      http://cse.naro.affrc.go.jp/takezawa/r-tips/r/40.html Import Table format data
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    " " " " " cf. R-Tips: 40.  

    # $ http://cse.naro.affrc.go.jp/takezawa/r-tips/r/40.html Import Table format data # &_"# $
    # " # "/!  # %"
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    " " " " " cf. R-Tips: 40.  

    # $ http://cse.naro.affrc.go.jp/takezawa/r-tips/r/40.html Import Table format data # &_"# $
    # " # "/!  # %"
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    67  
    1 @y__mattu https://github.com/ymattu/TokyoR67 Import Table format data

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    ∖
    
           Import Table format data Wrap
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     Import Table format data 
    

    Wrappers
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     Import Table format data 
    

    Wrappers
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    Package … {utils} Package {base} Package

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    Package Package Package Package Package Package Package Package Package Package

    Package Package Package Package Package
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    packages 
    

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    cf. http://rpkg.gepuro.net/ cf. https://cran.r-project.org/web/packages/ at 2018.02.20

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    Package Default pkgs Package Package Package CRAN Guithub Package Package

    Package Package Package Package Package Package  
       
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     Import Table format data Default

    installed pkg (optional) Function   
     Install REQUIRED
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    Import Table format data List of installed packages

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    Import Table format data      

     Installation (from CRAN)  
    
     Usage  
    
          or
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    Import Table format data Global environment # Attach {data.table}

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    Import Table format data      

     
        
      Fast!!! Flexible!!! Need installation Should specify: data.table =FALSE Automatic!!! Simple!!!
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       object file path Export Table format data Wrapper
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    Input Output Today’s talk ? ? Table data Image data

    Other formats Summary Introduction
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    Image data Table data Image data Other formats Summary Introduction

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    Export image data ?

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    Export image data Use Graphic Device ready graphic device close

    graphic device draw graph(s) plotting functions
    High-level
    Low-level
    Interactive Basic Graphics in R http://bcb.dfci.harvard.edu/~aedin/courses/BiocDec2011/2.Plotting.pdf
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    Export image data Use Graphic Device ready close draw 

    
     
           High-level plotting function
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    hogehoge ~/Documents/R hogehoge.Rproj hoge.png New!!

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    Export image data Graphic Devices in

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    Export image data Graphic Devices in    

    
    
    
      
    
    
    
    
    
          
     
     
      
    
       
    
     
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      ready graphic device close graphic device draw graph(s)

    Image data processing Import & Export image    
    
    
    
    
    
    
    
    
    
       
    
    
    
    
    
    
    
    
    
    
     processing
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      Import image data     

    
    
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      Import image data     

    
    
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      Import image data     
    

      
        
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      Import image data     
    

      
        
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    Import image data  
    
        

    
    
       Export image data  
    
        # not CRAN pkg  
    
       # low googlability !
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    Import image data  
    
        

    
    
       Export image data  
    
        # not CRAN pkg  
    
       # low googlability !
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    None
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    None
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    None
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    Salvador Dalí 1904-1989 profile of time wikipedia

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    http://seekr.jp/

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    None
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    None
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    Input Output Today’s talk ? ? Table data Image data

    Other formats Summary Introduction
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    Table data Image data Other formats Other formats Summary Introduction

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    .xls or .xlsx       
    
    
    
    
    
    
    
    
    
    
    
    GJMF
    QBUI

     
    
    
    
    
    
    
    TIFFU
    OBNF
    PS
    /P
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    .json     Wrap  
      

    Wrap   
    
      
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       .wav or .mp3    

        
    
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    .sas or .dta or .sav SAS Stata SPSS  

     
      
         
      
        
     
    
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     Table data Image data Other formats Summary Introduction

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    Input Output Do NOT start from here Whatever … 1

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    Data Import / Export ? ?

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    packages 
    

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    Data Import / Export ? ?    

    
                       packages
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    ~/Documents/R project1 project2 project3 project4

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    Before After BeginneR Session
    
     ?

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    ! KMT©

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    KMT©