Results for "Next generation sequencing"

Bio-Scripts

  • Genetic Algorithms demonstration with word DNA in Perl

    ...mum fitness for survival my $generation_count = 100000; # run for this many generations my $generation = 0;...returns more than mut_rate next if rand > $mut_rate; # mutate th...in the DNA, or vice versa next unless $words =~ /$entry/; # we...

    2335 days ago

  • Fastq-dump for SRA download

    ➜ bin git:(master) ✗ ./fastq-dump --help Usage: ./fastq-dump [options] [...] ./fastq-dump [options] IN...ol program execution environment report generation...

    2089 days ago

  • Downloading GATK !

    ...Tools that process sequencing machine data, e.g. Illumina base calls, and detect sequencing level attributes, e.g. adapte...Collect whole genome sequencing-related metrics. Colle...ed allele fractions in pooled sequencing CalculateGenotypePosteri...

    2038 days ago

  • Bash script to download SRA file !

    #We can use the sratoolkit to directly pull the sequence data (in paired FASTQ format)...is in the SRA toolkit. It allows directly downloading data from a particular sequencing run ID fastq-dump --split-...

    1522 days ago

  • To convert just one specific read group to fastq

    # Stop script on error. set -uex # The SRR BioProject number for the sequencing data. PROJECT=PRJNA257197 # T...

    1505 days ago

  • Pack a perl program with their dependencies on Ubuntu !

    #Follow steps to create your own executable ./web jit@jit...is a method for detecting structural variants in sequencing data using genome-wide local...nsfer (HGcoT) between bacteria using whole-genome sequencing (WGS) data. It is particularl...

    1474 days ago

  • Genome assembly Treasure Hunt

    Use pen and paper the assemble it. If you are brave enough, you can try to assemble...AGCCGGACCT TATGATCATT TCATTAGGCG AGGCGGAGCT HINT: There is NO sequencing errors HINT: Overlaps are...

    1178 days ago

  • Install Varscan on Ubuntu / Linux !

    #Varscan is a java program designed to call variants in sequencing data. It was developed at the Genome Institute at Washington University and is hosted on github. To use Varscan we simply need to d...

    786 days ago