Results for "split reads"
Bio-Scripts
Python script to download covid genome !
#!/usr/bin/env python3 # these are the publicly available "complete" sequences # https://www.gisaid.org/ has mo...Entrez.efetch(db='nucleotide',id=nm, rettype = 'fasta', retmode= 'text').read().split...1125 days ago
Perl script to count the number of Adenine, Thymine, Guanine and Cytosine in your DNA Sequence
#!/usr/local/bin/perl -w # While executing this script it asks for the file name of the DNA sequence. If the seq...); print " \n The original DNA file is:\n $DNA \n"; $DNA =~ s/\s//g; @DNA = split...2905 days ago
Perl program to implement sliding window !
#!/usr/bin/perl -w my $filename = 'data.txt'; open(my TR, '2904 days ago
Perl to print indivisual nucleotide from a sequence!
#!/usr/bin/perl use strict; use warnings; my $string = "ATGCTTGCGT?AAATG??CT?GCGTA"; my @chars = split("", $string); print "First character: $chars[0]\n";2903 days ago
Needleman-Wunsch Algorithm in Perl
#!/usr/bin/perl # USAGE: perl nw.pl HEAGAWGHEE PAWHEAE BLOSUM50.txt -8 # See: "Biological sequence anaysis" Durbin et al. ed. CUP 1998, Pg. 19 # Needleman...2895 days ago
Count GC Content in nucleotide sequence with Perl
#!/usr/bin/perl -w ### Usage: get_gc_content.pl ### #...ub usage { $0 get_gc_content.pl } sub process_it { @letters = split...2895 days ago
Perl script to extract lines with matching ids !!
#!/usr/bin/perl use strict; use warnings; my %patterns; #USAGE: perl extactByIds.pl Idsfile1 file2 > Result # Open file and get patterns to search for open(my $fh2,"2864 days ago
Perl script to extract fasta sequence by matching name/ids !!
#!/usr/bin/perl use strict; use warnings; use Text::Trim qw(trim); #Usage perl...p; next if /^\s*$/; s/>//g; my @ids=split (/\t/, $_); $select{$ids...le () { trim($_); s/>//g; my ($id) = split...2864 days ago
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2861 days ago
- #!/usr/bin/perl #use strict; #use warnings; #Author: Santhilal Subhash #Contact: santhilal.subhash@gu.se #RPKM for RNAseq V1.3 #USAGE for sample input provided:...
2861 days ago
