Perl Special Vars Quick Reference
...comparison routine variables. @ARGV The command-line args. Regular Expre...turned by the last pipe close, backtick (`` ) command, successful call to wait() or...;stat() won't try to open the file. Command Line Args ARGV Filehand...2657 days ago
Awesome perl frameworks, libraries and software - PART 1
...An interactive console text-based command-line Twitter client written i...nbsp;- A Perl module and terminal command for generating secure memorab...- Plot your commit history on the command line with sparklines. A mash...y.org site pssc/squeezy - A command-line utility for controlling...2502 days ago
Tools for bacterial whole genome annotation
...I think this is the best way to get a high quality annotation (if you have only a few genomes to annotate). Prokka – Standalone command line tool, takes just a few m...2345 days ago
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Linux Commands Cheat Sheet for Bioinformatics and Computational Biology Professionals
...e last 10 lines vim file — edit file alias name 'command' — create an alias for a command System shutdown &mdash...pattern in dir and only search in files with .ext extension command | grep pattern — s...2294 days ago
Awk for Bioinformatician and computational biologist
...ATATT You can also store data in the memory with the syntax VARIABLE_NAME[KEY]=VALUE which you can later use through for (INDEX in VARIABLE_NAME) command: $ awk '{i[$1]=1}END{for (j...2293 days ago
Some useful Bioinformatics links
...yte https://gigabaseorgigabyte.wordpress.com/2017/06/01/example-gallery-of-nanoplot/ Tool documentation https://broadinstitute.github.io/picard/command-line-overview.html Chromosome...2255 days ago
Installing Bio::SCF perl module
...w-to-install-perl-modules-manually-using-cpan-command-and-other-quick-ways install...ing config.hconfig.status: executing depfiles commandsjitendra@jitendra-UNLOCK-INST...uto/Bio/SCF/SCF.so"/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- SCF.b...2231 days ago
Creating conda environment for python2.7
...-packages flag: conda create --no-default-packages -n myenv python TIP: You can add much more to the conda create command. For details, run conda&...2203 days ago
Frequent Paired-end reads (PE 2x100) mapping command lines
bowtie2 -x hs37m -X 650 -q -1 r1.fq -2 r2.fq -S r12.bowtie2.sam bwa aln hs37m.fa r1.fq > r1.sai && bwa aln hs37m.fa r2.fq > r2.sai \ &&...2195 days ago