Results for "gz"
Bio-Scripts
(JitMetaENV) ➜ JitMeta conda install grabseqs -c louiejtaylor -c bioconda -c conda-forge Collecting package metadata (current_repodata.json): done Solving environment: done ==> WARNING: A newer version of conda exists.1219 days ago
Download minikraken database !
..._dbs/old/minikraken2_v2_8GB_201904.tgz % Total % Received % Xf...day3 ls minikraken2_v2_8GB_201904.tgz (JitMetaENV) ➜ day3 mkdir k...DB mv ../minikraken2_v2_8GB_201904.tgz . (JitMetaENV) ➜ krakenDB t...DATE --fastq-input --report evol1 --gzip-compressed --paired ../mapp...1217 days ago
- ...ting bokeh==1.4.0 Downloading bokeh-1.4.0.tar.gz (32.4 MB) |████████████...llecting ete3>=3.1 Downloading ete3-3.1.2.tar.gz (4.7 MB) |█████████████...ing PyYAML>=3.10 Downloading PyYAML-5.3.1.tar.gz (269 kB) |█████████████...
1210 days ago
Set up WGD environment using conda !
...ing bokeh==1.4.0 Using cached bokeh-1.4.0.tar.gz (32.4 MB) Collecting fastclu...lecting ete3>=3.1 Using cached ete3-3.1.2.tar.gz (4.7 MB) Collecting humanfri...ng PyYAML>=3.10 Using cached PyYAML-5.3.1.tar.gz (269 kB) Collecting scipy>=1...1206 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://wdiceryfd4rjn74bjhhtz2k5di--bioinformatics-psb-ugen...(wgd) ➜ i-adhore-3.0.01 git:(master) ✗ tar -zxvf i-adhore-3.0.01.tar.gz (wgd) ➜ i-adhore-3.0.01 git...1206 days ago
Perl script to check perl modules and download NCBI, BUSCO, Taonomy, Silva databases !
...p my $url = 'ftp://ftp.ncbi.nlm.nih.gov/pub/taxonomy/taxdump.tar.gz'; my $file = 'taxdump.tar.gz'; my $code = getstore($url...taxdump; wget ftp://ftp.ncbi.nlm.nih.gov/pub/taxonomy/taxdump.tar.gz; tar xzfp taxdump.tar.gz`; p...1163 days ago
- #use strict; use warnings; use ExtUtils::Installed; use LWP::Simple; use Archive::Extract; # # First, check if all the required modules have been installed in t...
1161 days ago
Install grabseqs using conda !
vik@vik-Lenovo-ideapad-320-15ISK:~/Downloads/setu/setu$ conda install grabseqs -c louiejtaylor -c bioconda -c conda-forge Collecting package metadata (current_repodata.json): done Solving environment: done ==> WARNING: A newer version of conda exists.1057 days ago
Corona variant calling steps !
...ls.pl varFilter results/bcf/$basename.vcf > results/vcf/$basename.vcf bgzip -c results/bcf/$basename.vcf > results/bcf/$basename.vcf.gz tabix -p vcf results/bcf/$b...1047 days ago
Commandline for paired end reads simulation with BBMap !
...ian] Writing reference. Executing dna.FastaToChromArrays2 [mixed.fa, 1, writeinthread=false, genscaffoldinfo=true, retain, waitforwriting=false, gz=true, maxlen=536670912, write...992 days ago
