How to resolve the algorithm Bioinformatics/base count step by step in the J programming language

Published on 12 May 2024 09:40 PM
#J

How to resolve the algorithm Bioinformatics/base count step by step in the J programming language

Table of Contents

Problem Statement

Given this string representing ordered DNA bases:

Let's start with the solution:

Step by Step solution about How to resolve the algorithm Bioinformatics/base count step by step in the J programming language

Source code in the j programming language

countBases=: (({.;#)/.~)@,
totalBases=: #@,

require 'format/printf'

printSequence=: verb define
'Sequence:' printf ''
'%4d: %s' printf ((- {.)@(+/\)@:(#"1) ,.&<"_1 ]) y
'\n Base Count\n-----------' printf ''
'%5s: %4d' printf countBases y
'-----------\nTotal = %3d' printf totalBases y
)


   DNABases=: ];._2 noun define
CGTAAAAAATTACAACGTCCTTTGGCTATCTCTTAAACTCCTGCTAAATG
CTCGTGCTTTCCAATTATGTAAGCGTTCCGAGACGGGGTGGTCGATTCTG
AGGACAAAGGTCAAGATGGAGCGCATCGAACGCAATAAGGATCATTTGAT
GGGACGTTTCGTCGACAAAGTCTTGTTTCGAGAGTAACGGCTACCGTCTT
CGATTCTGCTTATAACACTATGTTCTTATGAAATGGATGTTCTGAGTTGG
TCAGTCCCAATGTGCGGGGTTTCTTTTAGTACGTCGGGAGTGGTATTATA
TTTAATTTTTCTATATAGCGATCTGTATTTAAGCAATTCATTTAGGTTAT
CGCCGCGATGCTCGGTTCGGACCGCCAAGCATCTGGCTCCACTGCTAGTG
TCCTAAATTTGAATGGCAAACACAAATAAGATTTAGCAATTCGTGTAGAC
GACCGGGGACTTGCATGATGGGAGCAGCTTTGTTAAACTACGAACGTAAT
)
   printSequence DNABases
Sequence:
   0: CGTAAAAAATTACAACGTCCTTTGGCTATCTCTTAAACTCCTGCTAAATG
  50: CTCGTGCTTTCCAATTATGTAAGCGTTCCGAGACGGGGTGGTCGATTCTG
 100: AGGACAAAGGTCAAGATGGAGCGCATCGAACGCAATAAGGATCATTTGAT
 150: GGGACGTTTCGTCGACAAAGTCTTGTTTCGAGAGTAACGGCTACCGTCTT
 200: CGATTCTGCTTATAACACTATGTTCTTATGAAATGGATGTTCTGAGTTGG
 250: TCAGTCCCAATGTGCGGGGTTTCTTTTAGTACGTCGGGAGTGGTATTATA
 300: TTTAATTTTTCTATATAGCGATCTGTATTTAAGCAATTCATTTAGGTTAT
 350: CGCCGCGATGCTCGGTTCGGACCGCCAAGCATCTGGCTCCACTGCTAGTG
 400: TCCTAAATTTGAATGGCAAACACAAATAAGATTTAGCAATTCGTGTAGAC
 450: GACCGGGGACTTGCATGATGGGAGCAGCTTTGTTAAACTACGAACGTAAT

 Base Count
-----------
    C:   97
    G:  119
    T:  155
    A:  129
-----------
Total = 500

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