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Results for "Perl"

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• • Jit@jit.aber

  

  Some useful tricks for next generation seq analyst http://chicken.genouest.org/ #Perl #R #C/C++

  Tags: Perl, R, C

  3862 days ago

• • Jit@jit.aber

  

  Detect the sequence pattern and its location in fasta file with match and mismatches information.

  This script is one of my old script to detect some centromeric pattern in chromosomes. User can also control the number of mismatches allowed through command line .. To run: perl centro.pl

  Tags: Centromere, AI, Perl, Pattern, Regular Expression, Extract Region

  3851 days ago

• • Jitendra Narayan@admin

  

  Convert space separated data to tab separated: perl -p -i -e 's/\s+/\t/g' file.txt #Perl #Tipsoftheday #Perlonliner

  Tags: Perl, Tipsoftheday, Perlonliner

  3846 days ago

• • Agampreet Kaur@agampreet

  

  Replace N characters with random nucleotide in a FASTA file.

  During sequencing and assembly process Fasta files typically contain invalid characters such as "NNNN", how can I remove those with randon nucleotide charaters A T G C.

  Tags: FASTA, Perl, N characters, Random

  3851 days ago

• • Jit@jit.aber

  

  Clean the FASTA file

  Mostly FASTA file contain NNN characters, which can be replace by random A T G C character with this perl script. It also print the FASTA sequence name, N's counts, nucleotide count and percentage details at command prompt/standard output.  

  Tags: Fasta, Clean, Perl, NNN charaters

  3849 days ago

• • Shikha Logwani@shikha

  

  Perl Special Variables Quick Reference http://www.perlmonks.org/?node_id=353259 #Perl

  Tags: Perl

  3836 days ago

• • Rahul Nayak@rahul

  

  Perl Regular expression http://raven.iab.alaska.edu/~ntakebay/teaching/programming/perl2nd/node1.html #Perl #RegularExpression

  Tags: Perl, RegularExpression

  3803 days ago

• • Jit@jit.aber

  

  perl -nle 'if (/^>/) { $sl = 0; print; next } next if ($sl >= 200); $_ = substr($_, 0, 200-$sl) if ($sl + length($_) > 200); $sl += length($_); print;' file.fa >new.fa #Perl #Extract #Fasta

  Tags: Perl, Extract, Fasta

  3604 days ago

• • Shruti Paniwala@shruti

  

  Useful perl scripts collections http://raven.iab.alaska.edu/~ntakebay/teaching/programming/perl-scripts/perl-scripts.html #Perl #Scripts

  Tags: Perl, Scripts

  3706 days ago

• • Rahul Nayak@rahul

  

  Perl module http://perlmaven.com/how-to-create-a-perl-module-for-code-reuse #Perl #Module #Package

  Tags: Perl, Module, Package

  3704 days ago

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