Results for "awk"

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  • Awk

    Awk

    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://www.grymoire.com/Unix/Awk.html http://www.hcs.harvard.edu/~dholland/computers/awk.html http://www.pement.org/awk/awk1line.tx...

    Tags: awk, gawk, nawk, sed, data, sequencing, one liner

    1626 days ago

  • Print all the values beetween a pattern "abc" > awk '/abc/{flag=1;next}/mno/{flag=0}flag' file #awk #print #range #pattern

    Tags: awk, print, range, pattern

    715 days ago

  • Rename/number the multi-fasta file in ascending order. $ awk '/^>/{print ">" ++i; next}{print}' < Mix_assembly.fasta > Mix_assembly2.fasta #awk #oneliner

    Tags: awk, oneliner

    246 days ago

  • Replace space with tab. $ awk -v OFS="\t" '$1=$1' file1 #tab #space #replace #awk

    Tags: tab, space, replace, awk

    169 days ago

  • Remove duplicated lines from text file. $ awk '!seen[$0]++' allIds #duplicate #lines #remove #awk

    Tags: duplicate, lines, remove, awk

    167 days ago

  • Converting FASTQ to FASTA

    There are several ways you can convert fastq to fasta sequences. Some methods are listed below. Using SED sed can be used to selectively print the desired lines from a file, so if you print the first and 2rd line of every 4 lines, you get the sequence header and sequence need...

    Tags: fasta, fastq, convert, sed, awk, seqtk, bioawk, fastx, Emboss, fastq2fasta

    12 days ago

  • Most Commonly used Awk by Bioinformatician

      Awk is a programming language that is specifically designed for quickly manipulating space delimited data. Although you can achieve all its functionality with Perl, awk is simpler in many practical cases. Why awk? You can replace a pipeline of 'stuff | grep | sed | cut...' with a single ...

    Tags: Awk, Bioinformatics

    1619 days ago

  • sahabuddin

    Bioinformatics researcher

    Skills: Perl, Awk, Python, R

    34 days ago