• Intro

  • step_01
  • step_02
  • step_03
  • step_04
  • step_05
  • step_06
  • step_07
  • step_08
  • step_09
  • step_10
  • step_11
  • step_12
  • step_13
  • step_14
  • step_15
  • step_16
  • step_17
  • step_18
  • step_19
  • step_20
  • step_21
  • step_22
  • step_23
  • step_24

  • Credits



    • CGPDB
    UC Davis


    Step 9: Processing of the CAP3 output
    Obtaining of the "Contig_Info" file

    At this step we have used Python_CAP3_ContigExtractor_Feb_27_2004.py script with option "1" to process CAP3 output and generate so called "Contig Info" file. Below is the example of Python_CAP3_ContigExtractor_Feb_27_2004.py dialog:

    $ python Python_CAP3_ContigExtractor_Feb_27_2004.py
    What type of output do you want? (1/2): 1
    Enter the SOURCE file name: tomato_ABC.cap3.out
    Enter the DESTINATION file name: tomato_ABC.cap3.out.Info

    tomato_ABC.cap3.out.Info file has been generated.
    Below, is an example of five lines taken from tomato_ABC.cap3.out.Info file:



    Selected Contig734 contains three ESTs in the assmbly and has length of 781 nucleotides. Regions of spanning for every EST in the contig are displayed in brackets.