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Results for "Oneliner"

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• • Poonam Mahapatra@poonam

  

  Fancy Oneliner for Bioinformatics !!

  This webpage lists some of the one-liners that we frequently use in metagenomic analyses. You can click on the following links to browse through different topics. You can copy/paste the commands as they are in your terminal screen, provided you follow the same naming conventions and folder struct...

  Tags: Bioinformatics, Analysis, Visualization, SAM, BAM, Oneliner, NGS, metagenomics

  2850 days ago

• • Jit@jit.aber

  

  Perl OneLiner http://userweb.eng.gla.ac.uk/umer.ijaz/bioinformatics/oneliners.html #Perl #Oneliner #NGS #Script

  Tags: Perl, Oneliner, NGS, Script

  2551 days ago

• • Rahul Nayak@rahul

  

  Unmasking the lower case values in genome. $ perl -pe '/^[^>]/ and $_=uc' genomic.fna > genomic.unmasked.fna #Genome #Unmask #Perl #Oneliner

  Tags: Genome, Unmask, Perl, Oneliner

  2514 days ago

• • Rahul Nayak@rahul

  

  Bioinformatics OneLiner

  To remove all line ends (\n) from a Unix text file: sed ':a;N;$!ba;s/\n//g' filename.txt > newfilename_oneline.txt To get average for a column of numbers (here the second column $2): awk '{ sum += $2; n++ } END { if (n > 0) print sum / n; }' To get sequence length for all sequences in a...

  Tags: Bioinformatics, Oneliner

  2208 days ago

• • Rahul Nayak@rahul

  

  Fancy One-Liner http://userweb.eng.gla.ac.uk/umer.ijaz/bioinformatics/oneliners.html #Perl #OneLiner #Bioinformatics #Quick #Common #Tricks #CommandLine #Terminal

  Tags: Perl, OneLiner, Bioinformatics, Quick, Common, Tricks, CommandLine, Terminal

  3220 days ago

• • Jit@jit.aber

  

  Print all text after a matching string perl -ne "print unless 1 .. m(String)" #Perl #OneLiner #String #Perl #Trick

  Tags: Perl, OneLiner, String, Perl, Trick

  2965 days ago

• • Shruti Paniwala@shruti

  

  Fasta sequence length: awk '/^>/ {if (seqlen){print seqlen}; print ;seqlen=0;next; } { seqlen += length($0)}END{print seqlen}' file.fa #Length #Linux #OneLiner

  Tags: Length, Linux, OneLiner

  2650 days ago

• • Jit@jit.aber

  

  NGS onliner http://userweb.eng.gla.ac.uk/umer.ijaz/bioinformatics/subsetFASTAFASTAQ.html #OneLiner #NGS

  Tags: OneLiner, NGS

  2551 days ago

• • BioJoker@biojoker

  

  Genome Mapping #OneLiner https://bioinformaticsonline.com/snippets/view/39310/one-liner-for-reads-mapping

  Tags: OneLiner

  1819 days ago

• • Jit@jit.aber

  

  https://github.com/stephenturner/oneliners #Bash #Tutorial #OneLiner

  Tags: Bash, Tutorial, OneLiner

  1649 days ago

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