• 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 22: Obtaining of programs and scripts

    Perl Python Tcl/Tk

    NCBI BLAST (public domain)

    CAP3 Sequence Assembly Program Copyright by Xiaoqiu Huang, Michigan Technological University

    Primer3 program Copyright Whitehead Institute for Biomedical Research
    Also you can download Primer3 here

    Programs and scripts developed at UCD, R. Michelmore Lab
    (all Perl/Python/Tcl-Tk scripts below are under GNU General Public License)

    tcl_blast_parser_123

    Python_CAP3_ContigExtractor_Feb_27_2004.py

    Python_CAP3_MM_Finder_Feb_27_2004.py

    Python_CAP3_contig_poly_DIS_Feb_27_2004.py

    Py_ContigViewer

    seqs_processor_007.py

    contig_target_May_01_2003.pl

    Note: this pipeline was designed by year 2003. Since that time a sligthly different approach and improved scripts were developed. You can check the current protocol of EST selection and SNP discovery here.