Results for "Assembly"

Bio-Scripts

  • Download the genome from NCBI using bash script/command

    ...cd genome # Look for genome assembly summary and extract the URL...nlm.nih.gov/genomes/refseq/fungi/assembly_summary.txt' | awk '{FS="\t"}...nih.gov/genomes/genbank/bacteria/assembly_summary.txt' | awk '{FS="\t"}....nih.gov/genomes/refseq/protozoa/assembly_summary.txt' | awk '{FS="\t"}...

    271 days ago

  • Download the gff files from NCBI using bash script/command

    ...genome_gff # Look for genome assembly summary and extract the URL...nlm.nih.gov/genomes/refseq/fungi/assembly_summary.txt' | awk '{FS="\t"}...nih.gov/genomes/genbank/bacteria/assembly_summary.txt' | awk '{FS="\t"}....nih.gov/genomes/refseq/protozoa/assembly_summary.txt' | awk '{FS="\t"}...

    262 days ago

  • Create genome scaffolding with Perl

    ...rbose => 0}); } } @ARGV = @pslFiles; if(!$projOpts->{"query"}){ pod2usage({-exitVal => 1, -message => "Error: No query assembly file provided",...

    47 days ago