Results for "Repeat"
Bio-Scripts
Install Parrot Virtual Machine !
...::perldoc - Is perldoc installed.................................no. auto::coverage - Are coverage analysis tools installed...Negative repeat count does nothing at lib/Par...1528 days ago
Pack a perl program with their dependencies on Ubuntu !
#Follow steps to create your own executable ./web jit@jit-HP-Pro-3335-MT:~/Downloads/autoConTAMPR/bin$ sudo apt install libpar-packer-perl Reading package lists......1503 days ago
Identify genome-wide synteny with LASTZ alignment
#This is the walkstrough how to identifiy genome-wide synteny markers based on LASTZ alignment. Step1：Mask the repeat sequences for both genomes and chromosomes. RepeatMasker -pa 40 -nolow -norna -gff -xm...508 days ago
Perl script to find inverted repeats !
...Bio::SeqIO; use Bio::Tools::Run::RepeatMasker; my $genome_file = "...y $seq = $seqobj->seq(); # run RepeatMasker my $rm = Bio::Tools::R...rm->run($genome_file); # parse RepeatMasker output while (my $rm_r...} print "Inverted repeat found at positions $rm_start-...416 days ago
Raku script to find SSRs in fastq file !
...for 2..$sequence.chars -> $min-repeats { for $sequence.chars...$min-repeats -> $max-repeat {...r($min-repeats - 1, $max-repeat - $min-repeats + 1); my $repea..., end => $max-repeat, length...103 days ago
Raku script to find repeats in sequences !
sub find-repeats($sequence, $min-repeat-length = 3) { my @repeats; for ^($sequence.chars - $min-re...y $substring = $sequence.substr($i, $min-repeat-length); if $seque...tring); } } return @repeats; } # Example usage my $...86 days ago
Raku script to find microsatellites in DNA fragments !
sub find-microsatellites($sequence, $min-repeat-length = 2, $max-repeat-length = 6, $min-repeat-count =...{ my @microsatellites; for my $repeat-length ($min-repeat-length..$...my $substring = $sequence.substr($i, $repeat-length); if $s...86 days ago
