Create random 2 translocations in genome !
(base) ➜ dupStudy git:(master) ✗ perl ../simuG.pl -refseq simuINV.simseq.genome.fa -t...[Sun Jan 10 17:12:58 2021] Starting simuG .. [Sun Jan 10 17:12:58 2021] Check specified options .. Running...1255 days ago
Set up WGD environment using conda !
#Wgd cannot be installed directly with bioconda at present, so it is slightly troubles...blastp + MCL clustering. mix Mixture modeling of Ks distributions. pre Check and optionally rename CDS fil...1247 days ago
Install and set up i-adhore for synteny and wgd analysis ! -- step by step --
#Need to download i-adhore-3.0.01.tar.gz from https://wdic...I info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/...info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /us...1247 days ago
Steps to install Conda on Linux !
Download the installer: Miniconda installer for Linux. ( https://docs.conda.io/en/l...-2020.11-Linux-x86_64.sh #Follow the yes/no flags and finish till the end #Check the installation $ conda -...1226 days ago
Parse the NCBI taxonomy database with Perl !
use Bio::DB::Taxonomy; use warnings; my $sps="human";...-namesfile=> "taxdump/names.dmp"); #to check #parseTax('homo_sapiens', 'm..._->scientific_name; print "\n";} my $decision =recheck_class (1974465, "metazoa");...1216 days ago
Perl script to check perl modules and download NCBI, BUSCO, Taonomy, Silva databases !
use strict; use warnings; use ExtUtils::Installed; use LWP::Simple; use Archive::Extract; # # First, check if all the required modules h...1204 days ago
1202 days ago
Perl script to check modules installed !
#use strict; use warnings; use ExtUtils::Installed; # # First, check if all the required modules have been i...1199 days ago
Bash script to check installed bioinformatics program !
allTools=(bwa mummer trimomatic) decFlag=0; for name in ${allTools[@]}; do #echo "enter your package name" # read name dpkg -s $name &> /dev/null...1090 days ago
1034 days ago