Results for "quality check"
Bio-Scripts
#!/usr/local/bin/perl -w # Can be easily modified to run any command on every sequence in a folder # Directory of sequences $myDir = "/home/anjana/seqs"; # Out...2929 days ago
Count the frequency of base G in a given DNA sequence
#!/usr/bin/perl use strict; use warnings; my $DNA = "GATTACACAT"; #initialize...gth of $DNA my $DNAlength = length($DNA); #for each letter in the sequence check if it is the base G #if 'yes...2930 days ago
- #!/usr/bin/perl use strict; use warnings; my $DNA = "GATTACACAT"; #transcribe DNA to RNA - T changes to U my $RNA = $DNA; $RNA =~ s/T/U/g; print "RNA sequen...
2930 days ago
Check if your coputer ready to use BioPerl
#!/usr/bin/perl use strict; use warnings; #bioperl example code use strict; use warnings; #make the bioperl module (class) accessible to your program use Bio::Seq; print"ok - ready to use Bio::Seq";2930 days ago
- #!/usr/bin/perl use strict; use warnings; #For normal overlaps my ($lower, $upper) = (40, 100); for my $num (17,42,99,111) { my $is_between = (sort...
2649 days ago
Check overlapping range with Perl
#!/usr/bin/perl use strict; use warnings; my @ranges = 0; push @ranges, $ranges[-1] + 1 + int rand 200 for 1..10000; my @tests = map int rand $ranges[-1], 0.....2640 days ago
Genetic Algorithms demonstration with word DNA in Perl
#!/usr/bin/perl -w # GA demonstration with word DNA (512 b...reference to the weights array here # do sanity checking on $index die "Undefine...# there is no easy way to avoid this exhaustive check of the dictionary # withou...2385 days ago
Clump Finding Problem Solved with Perl
#Find patterns forming clumps in a string. #Given: A string Genome, and integers k, L...ame} == $clump; } kmerMatch ($string, $subStr, $kmer); sub kmerMatch { #Check the exact matching kmers with...2347 days ago
Plot the density of genes in R
#column1 = chromosome name and column2 = start position of the gene # check if ggplot2 is installed, if so, loa...2297 days ago
Estimate Genome Size with Jellyfish and R
jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? /common/Tutorial/Genome_estimation/sample_r...emory allocation #-o -output=string Output file name #--min-quality-char Base quali...2259 days ago
