Results for "quality check"
Bio-Scripts
Perl script to read multi fasta sequence one by one
#!/usr/bin/env perl use strict; use warnings; #USAGE #perl rohanRun.pl seq.fa my $outfile='tmp.fa'; my $fastaSeq_ref = readfasta ("$ARGV[0]"); my %fastaSeq...2248 days ago
Perl script to check fastq reads qualities !
#!/usr/bin/env perl use strict; use warnings; sub readfq { my ($fh, $aux) = @_; @$aux = [undef, 0] if (!defined(@$aux)); return if ($aux->[1]); if (!def...2182 days ago
Installing Busco version 4.0.6
(base) jit@jit-HP-Pro-3335-MT: conda install -c bioconda -c conda-forge busco...oconda/linux-64::perl-module-metadata-1.000036-pl526_0 perl-params-check bioconda/linux-64::perl-params-check-0.38-pl526_1 perl-parent...1480 days ago
Perl subroutine for reading multifasta file !
sub readfasta { (my $file)=@_; my %sequence; my $header; my $temp_seq; #suppose fasta files contains multiple sequences; open (IN, "2172 days ago
Perl script to run SATSUMA in loop !
#!/usr/bin/perl -w use strict; use File::Temp qw(tempfile); # Usage perl 1by1.pl for SATSUMA analysis # User need to set the reference multifasta file name her...2168 days ago
- ➜ bin git:(master) ✗ ./fastq-dump --help Usage: ./fastq-dump [options] [...] ./fastq-dump [o...t for other than SOLiD). Quality -Q|--offset Offset to use for quali...
2154 days ago
Install Parrot Virtual Machine !
#Parrot is a virtual machine designed to efficiently compile and execute bytecode for...-generated files Deleting cover-generated html files init::manifest - Check MANIFEST........................1565 days ago
- ➜ Tools git:(master) ✗ git clone https://git...olving deltas: 100% (223/223), done. Checking connectivity... done. ➜...piler identification is GNU 5.4.0 -- Check for working C compiler: /usr/...-- Looking for stddef.h - found -- Check size of off64_t -- Check siz...
2126 days ago
Install Python locally on shared Linux server !
#Install python to local directory #Firstly, I create a fo...point, you should be #able to see a new python. To check, run this command: which p...command to install pip as a local user wget --no-check-certificate https://bootstrap...2125 days ago
- ...ttributes, e.g. adapters CheckIlluminaDirectory (Picard)...------------ Diagnostics and Quality Control: Tools that collect sequencing quality related and comparative metri...(EXPERIMENTAL Tool) Check the variants in a VCF against...
2103 days ago
