Results for "Type"
Bio-Scripts
Retrieve NCBI GenBank records with a range of accession numbers
...database => undef, returnType => undef, maxRecords =>...\$param{database}, 'r|return_type=s' => \$param{returnType},...) or !( defined( $param{returnType} ) ) ) { print_usage();...= "$param{url}/efetch.fcgi?rettype=$param{returnType}&retmode=te...2916 days ago
Perl script to extract lines with matching ids !!
#!/usr/bin/perl use strict; use warnings; my %patterns; #USAGE: perl extactByIds.pl Idsfile1 file2 > Result # Open file and get patterns to search for open(my $fh2,"2875 days ago
- # Count k-mer occurrence using Jellyfish 2.2.6 jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? sread_1.fastq sread_2.fastq # points for a histogram jellyfish histo -o 19mer_out.histo 19mer_out #Plot results using R ##load the data into dataframe19 dataframe19
2265 days ago
Plot custom gene density with R
library(karyoploteR) pp2250 days ago
Estimate Genome Size with Jellyfish and R
jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? /common/Tutorial/Genome_estimation/sample_read_1.fastq /common/Tutorial/Genome_estimation/sample_rea...2246 days ago
- ...nfigure && make checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu check...for strings.h... yes checking for inttypes.h... yes checking for stdin...for strings.h... yes checking for inttypes.h... yes checking for stdin...
2152 days ago
Biological Sequence handling with Perl !
...$self)," must override the seq() method"; } # Return the type of the sequence as a human readable string sub type { return 'Generic Sequen...$class = ref($class) if ref($class); my ($sequence,$type) = @_; my $self = bless...2182 days ago
Perl script to convert GFF 2 FASTA !
...ARGV[2].gene.fasta" ); my $outfile_upstream3000 = Bio::SeqIO->new( -format => 'fasta', -file => ">$ARGV[2].upstream3000.fasta" ); ###### Output type description ###### # cds - t...2139 days ago
Install Parrot Virtual Machine !
...:arch - Determine CPU architecture and type, and OS........done. auto::c...k against a shared library.........yes. inter::types - What types should P...ignof - Determine offsetof values for our types.........skipped. auto::expe...1538 days ago
Long reads mapper bash script !
...=$1 refFasta=$2 longReads=$3 thread=$4 readsType=$5 if [ $# -lt 5 ]; then...ame" $lamsaLoc index $refFasta if [ $readsType == "ont" ]; then $lamsa...m else echo "MINIMAP2:Please specify reads type: ont, pacbio" fi elif [ $t...2123 days ago
