Results for "Command"
Bio-Scripts
...one Executing transaction: done (JitMetaENV) ➜ test_phase_assebly bwise *** This is BWISE - High order De Bruijn graph assembler *** The command line was: /home/urbe/anaconda...1011 days ago
Run multiple bash command in screen !
#login to screen screen -r 123 #bash.sh srun --partition=compute --nodes=1 --ntasks-per-node=40 --pty bash.sh #Run and check the status in screen contol +A +D983 days ago
Perl script for Smith-Waterman Algorithm
# Smith-Waterman Algorithm # usage statement die "usage: $0 \n" unless @ARGV == 2; # get sequences from command line my ($seq1, $seq2) = @ARGV; # scoring scheme my $MATC...971 days ago
Command line to create blast uniref database !
...lt uniref90.fasta > uniref90filt formatdb -t uniref90filt -i uniref90filt #When using NCBI BLAST+ the 'formatdb' command should be replaced by the equivalent 'makeblastdb' command: makeblastdb -dbtype prot...971 days ago
Command line to download blast database / protein
#download all available nr - protein database as a single file #Database location - NCBI where all databases are available ftp://ftp.ncbi.nlm.nih.gov/blast/db/ ht...964 days ago
Downloading mmseqs databases !
...has a value yes in the Taxonomy column above, all necessary files to use it as a valid seqTaxDB will be downloaded and prepared by the databases command. More information @ https:...963 days ago
- ...sudo apt update #Then install the MySQL package with the following command: sudo apt install mysql-se...ket to mysql_native_password. You can do that by running the following command: mysql > ALTER USER 'root'...
940 days ago
Install Php on Ubuntu / Apache server !
#Installing PHP 7.2 with Apache #If you are using Apache as your web server to install PHP and Apache PHP module run the following command: sudo apt install php libapache2-mod-php #Once the packages are installed restart the Apache service: sudo systemctl restart apache2940 days ago
- ...al words or pieces called fields. #NR: NR command keeps a current count of the...Remember that records are usually lines. Awk command performs the pattern/action s...N) to change the field separator. #RS: RS command stores the current record sep...
915 days ago
Bash script to split multifasta file !
...' < multi.fasta #Another great solution is genome tools (gt), which you can find here: http://genometools.org/, which has the following simple command: gt splitfasta -numfiles 1...844 days ago
