Unconfigured Ad

Collapse
X
 
  • Time
  • Show
Clear All
new posts
  • frz
    Junior Member
    • May 2013
    • 7

    #1

    filtering - find-if commands

    Hi, Could someone please tell me how to do this simple search. I don't know much programming and this is beyond me. But I think it should be a simple find-if loop?
    Thanks so much. File below has my query


    # need to perform
    # if for each value j (X, Y, Z) in column2, value i in column1 = A and B and C and D, then output value j
    # so in this example, I should only get 'X' as the output
    # as only X has rows with all four value i (A and B and C and D)

    A X
    A X
    B X
    C X
    D X
    D X
    D X
    A Y
    A Y
    B Y
    A Z
    B Z
    C Z
    C Z
    C Z
    C Z
    C Z
    C Z
    C Z
  • dpryan
    Devon Ryan
    • Jul 2011
    • 3478

    #2
    Saving that file as "foo.txt", one could just use R:

    Code:
    #Read in the file
    d <- read.table("foo.txt", sep=" ")
    #Split it according to the second column
    dl <- split(d, d$V2)
    #Create a function to return TRUE/FALSE
    foo <- function(x) {
         if(length(unique(x$V1)) != 4) {
             FALSE
         } else if(!all(c("A","B","C","D") %in% unique(x$V1))) {
             FALSE
         } else {
             TRUE
        }
    }
    #Run things
    sapply(dl,foo)
    The output is:
    Code:
        X     Y     Z 
     TRUE FALSE FALSE
    Last edited by dpryan; 01-23-2014, 03:14 PM. Reason: Swap order

    Comment

    • frz
      Junior Member
      • May 2013
      • 7

      #3
      Hi dpryan,

      This was really useful, thanks! I tried it on my actual data which is a bit more complex than the example above. I had to switch the %in% operator to come after the ("A","B',"C","D") instead of before and then it ran fine

      Thanks again!!

      Comment

      • dpryan
        Devon Ryan
        • Jul 2011
        • 3478

        #4
        True, I missed that. I updated my reply to incorporate that fix, should someone need it later.

        Comment

        Latest Articles

        Collapse

        • SEQadmin2
          Multiomic Liquid Biopsy: What DNA/RNA Panels Reveal That DNA Alone Can’t
          by SEQadmin2



          Tumors contain complex mixtures of cell populations that evolve in response to treatment and host-specific factors. Tissue biopsies provide only static snapshots of a tumor’s state. But what if we could follow that evolution over time using a minimally invasive technique?

          Liquid biopsies can detect tumor-derived material circulating in the bloodstream, providing a way to study treatment response, detect emerging resistance, and discover new biomarkers. Circulating
          ...
          10-14-2026, 09:55 AM
        • SEQadmin2
          New Genomics Technologies Take Aim at Long-Standing Limits
          by SEQadmin2


          Researchers using sequencing and genomics tools often have to make trade-offs. They can choose between speed or scale, short reads or long-range information, or targeted panels or a view of the whole transcriptome. New technologies that have been released this year are built to address those tough choices.

          We asked six companies the same four questions to learn about their latest products. The new technologies bring a lot to the table, including rethinking sequencing
          ...
          09-28-2026, 10:25 AM

        ad_right_rmr

        Collapse

        News

        Collapse

        Topics Statistics Last Post
        Started by SEQadmin2, Yesterday, 11:13 AM
        0 responses
        16 views
        0 reactions
        Last Post SEQadmin2  
        Started by SEQadmin2, Yesterday, 10:48 AM
        0 responses
        18 views
        0 reactions
        Last Post SEQadmin2  
        Started by SEQadmin2, 10-15-2026, 10:52 AM
        0 responses
        35 views
        0 reactions
        Last Post SEQadmin2  
        Started by SEQadmin2, 10-14-2026, 05:39 AM
        0 responses
        42 views
        0 reactions
        Last Post SEQadmin2  
        Working...