Results for "C"
Bio-Scripts
Command line to download blast database / protein
...tein database as a single file #Database location - NCBI where all databases are ava...//ftp.ncbi.nlm.nih.gov/blast/db/ https://ftp.ncbi.nlm.nih.gov/blast/db/ #...#First run this to download wget 'ftp://ftp.ncbi.nlm.nih.gov/blast/db/nr.*.t...1002 days ago
Download desire version of Blast software !
#Create a directory and wget it wget ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.6.0/ncbi-blast-2.6.0+-x64...ux.tar.gz #unpacking blast tar -zxvf ncbi-blast-2.6.0+-x64-linux.tar....des=1 #SBATCH --ntasks-per-node=32 #SBATCH --time=1:00:00 #SBATCH --jo...1001 days ago
- (base) [abhi@hn1 bin]$ conda install -c conda-forge -c bioconda hhsuite Collecting package metadata (cu...will be downloaded: package |...h6ed170a_1 26.6 MB bioconda libgomp-9.3.0...? y Downloading and Extracting Packages _openmp_mutex-4...
1000 days ago
Downloading mmseqs databases !
...- UniRef90 Aminoacid yes https://www.unipr...- UniProtKB Aminoacid yes https://www.unipr...- PDB Aminoacid - https://www.rcsb....ath/swissprot tmp #In this case, since Swiss-Prot has a va...1000 days ago
- ...of BBTools/BBMap https://sourceforge.net/projects/bbmap/ /genetics/elbers/bb...003401745.1_ASM340174v1_genomic.fna_upper.diploid.fasta.gz \...e.net/projects/bbmap/ /genetics/elbers/bbmap-38.86/reformat....luminanames=t addslash=t \ pacbio=t pbmin=0.13 pbmax=0.15 \...
986 days ago
Onliner to convert multi line fasta to single line fasta !
#Oneliner to convert awk '/^>/ {printf("\n%s\n",$0);next; } { printf("%s",$0);} END {printf("\n");}' < file.fa > fileres.fa #Then delete the first empty line tail -n +2 fileres.fa > fileout.fa986 days ago
Perl onliner to check the ids in two files !
perl -lane 'BEGIN{open(A,"ids2.txt"); while(){chomp; $k{$_}++}} if (defined($k{$F[0]})) {print "$_\t$F[0]\t1"} else {print "$_\tNA\t0"}; ' ids1.txt > aaa.xls985 days ago
Installing Covid19 Environment !
...-320-15ISK:~/vinodLab/Genepi$ conda env create -f covid19-environment.y...#################### | 100% cairo-1.16.0 | 1.5 MB...############# | 100% liblapack-3.9.0 | 12 KB | ###...#################### | 100% ca-certificates-2021 | 139 KB...982 days ago
- ...teps below: First, update the apt package index by typing: sudo...update #Then install the MySQL package with the following comman...llation is completed, the MySQL service will start automatically. To...r as root from an external program such as phpMyAdmin you have two o...
977 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 apache2977 days ago
