Results for "position"
Bio-Scripts
Perl script to Mutate a DNA Sequence
...mutate($mutant); print "$mutant\n"; print WRITE "$mutant\n"; } sub mutate { my($dna) = @_; my($position) = randomposition($dna); my $current_b...2907 days ago
- ...# Use DAS of UCSC to fetch specific sequence by its given chromosome position # From here: https://www.bio...if (! $size) { die "ERROR: You must pass three arguments: chr. num., position, and size.\n$usage"; }...
2901 days ago
- ...print “Was the ATG pattern found in dna2 : $m2 \n”; # find the position of the pattern match in dna1 $pos = index($dna1, $pattern); print “The match position of ATG in dna1 is : $pos \n”;...
2900 days ago
Implementation of biological random mutation with Perl
#!/usr/bin/perl -w use strict; use warnings; #sequence for a better recognition my $DNA="AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA \ n";...2893 days ago
Perl script to insert the DNA string in genome
...ile = $ARGV[0]; # input fasta file (genome file) my $out = $ARGV[1]; # output fasta file my $chr="test"; #insertion chromosome my $pos=10; # position of the insertion my $seqI =...2650 days ago
Extracting FASTA sequences based on position with perl script !!
#!/usr/bin/env perl #Uses: perl sub-seq.pl input.txt range use strict; use warnings; my $end = pop; my $start = pop; local $/ = '>'; while () {...2613 days ago
Insert the sequence at desire location in multi-fasta file with Perl
#!/usr/bin/perl use warnings; use strict; use Bio::SeqIO; use Bio::Seq; use File::Copy; #ARGV[0] should be in following format --- Keep the coordinate sorted b...2305 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...("ggplot2") library(ggplot2) } # import a text file with gene positions # columns should be: chr, p...2276 days ago
- # Count k-mer occurrence using Jellyfish 2.2.6 jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? sread_1.fastq sread_2.fastq # points for a histogram jellyfish histo -o 19mer_out.histo 19mer_out #Plot results using R ##load the data into dataframe19 dataframe19
2256 days ago
- ...Dump only aligned sequences --unaligned Dump only unaligned sequences --aligned-region Filter by position on genome. Name can...
2118 days ago
