Results for "One-liner"
Blogs
Perl one-liner for beginners !
...;' columnFileWithTabs.txt > justSecondColumn.txt One-Liner: Sort lines by their length...rt {length $a <=> length $b} <>' textFile One-Liner: Print second column, unless...1394 days ago
Bookmarks
Download mutliple fasta file from NCBI in one GO!!
if you have less time, then use three ways mentioned in bookmark link to extract/download all fasta sequences in single click given that you already have a list of GIs o...3923 days ago
Pages
- Perl has a ton of command line switches (see perldoc perlrun), but I'm just going to cover the ones you'll commonly need to debug code. The most important switch is -e,...
3282 days ago
Top-level pages
Most Commonly used Awk by Bioinformatician
...want to generate something on the fly. You can use awk to make a neat one-liner for some quick job in the ter....html http://www.grymoire.com/Unix/Awk.html A famous list of useful one-liners - though they're short, many...3925 days ago
Perl one-liner for bioinformatician !!!
...of Perl onliner is extremely helpful. Perl one-liners are small and awesome Perl p...bunch of files at once, and many more. Perl one-liners will make you the shell warr...gspot.com/2013/08/a-selection-of-useful-bash-one-liners.html http://biowize.wordpre...3641 days ago
Wire posts
Bio-Scripts
- bwa aln -t 8 targetGenome.fa reads.fastq | bwa samse targetGenome.fa - reads.fastq\ | samtools view -bt targetGenome.fa - | samtools sort - reads.bwa.targetGenome samtools index reads.bwa.targetGenome.bam
1847 days ago
Samtools commands for bioinformatician !
## count mapped reads samtools view -c -F 260 mapping_file.bam ### converting sam file into fasta samtools fasta reads_mapped.sam > reads.fasta ### converting...1616 days ago
- +3 more Bio-Scripts
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Awk is widely used these days for extraction and manipulation of large scale biological data in Unix/Linux.Most of the awk code is single liner. Useful Weblinks: http:...3932 days ago
Comments
Comment on "How to install Perl modules manually, using CPAN command, and other quick ways"
Check the perl module Test if dependencies are met by running this perl one-liner: perl -e "use JSON::XS;"1247 days ago
Comment on "Most Commonly used Awk by Bioinformatician"
Some of the commonly used bioinformatics one-liner by Stephen Turner @ https://github.com/stephenturner/oneliners3823 days ago
