Results for "Database Development"
Bio-Scripts
# To follow these instructions, we'll assume your system admins have already installe...xml2-dev # RHEL/CentOS system admins should run: sudo yum groupinstall -y 'Development Tools' sudo yum install -y e...2137 days ago
Retrieve NCBI GenBank records with a range of accession numbers
#!/usr/bin/perl #FILE: ncbi_search.pl #AUTH: Paul Stothard (paul...outputFile => undef, database => undef, returnType =...\$param{outputFile}, 'd|database=s' => \$param{database},...) or !( defined( $param{database} ) ) or !( defined( $par...2909 days ago
Converting from Windows-style to UNIX-style line endings with dos2unix
Lenovo-ideapad-320-15ISK:~/Downloads/abc/bin$ sudo apt install dos2unix [sudo] password for bioqueen: Readin...s (130 kB/s) Selecting previously unselected package dos2unix. (Reading database .....1170 days ago
Blast script to index and extract sequence !!
# look at the file $ head EC4115.fa >NC_011353.1 Escherichia coli O157:H7 str. EC4115...CAGACAGATAAAAATTACAGAGTAC # generate the blast database $ makeblastdb -dbtype nucl -...AATATAGGCATAGCGCACAGAC .... # query the blast database by...2845 days ago
Install ATOM editor on Elemantory OS / Ubuntu
.../s) Selecting previously unselected package gconf2-common. (Reading database ... 194272 files and director...d you know that you can turn Atom into a full-fledged IDE (integrated development environment) like Eclipse, Py...1169 days ago
- #!/usr/local/bin/perl -w # NOTE: YOU MUST CHANGE THE LINE ABOVE TO POINT...___.png A database file containing the...in your sequence. This database is not human-readable,...$dotfile", 0666) || die "Can't open database $d...
2686 days ago
BASH script for SelfBLAST a genome
#!/bin/bash #self BLAST a genome -- Expecting you have blast and samtools installed in your system #Author: Jit...ts, Detail of the arguments: $@" if [ -f $MYDB.nhr ] then echo "BLAST database fo...2645 days ago
Extract fasta sequence from a multifasta file with coordinates
#!/usr/bin/perl use Bio::DB::Fasta; #USAGE perl extractFASTAwithSIZE.pl finalSample_filtered.fa 0 1000 > aaa...">$id\n", "$sequence\n"; } __END__ use Bio::DB::Fasta; # Create database fr...2525 days ago
Installing Platypus on Ubuntu !
(py27) ➜ Tools git:(master) ✗ git clone https://github.com/andyrimmer/Platypus.git Cloning i...(Reading database .....2012 days ago
- $ sudo apt-get install rakudo [sudo] password for jit: Reading package lists... Done Building dependency tree...Selecting previously unselected package libjs-angularjs. (Reading database .....
1544 days ago
