Essential AWK Commands for Next Generation Sequence Analysis

Here are the few essential awk command line scripts for next generation sequence analysis. Users need latest version of gawk to run commands with bitwise operations. Most of the Linux distributions come with gawk. However OSX users have to install it from here http://rudix.org/packages/gawk.html Count number of reads in a FastQ file

Convert FastQ […]

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Short command lines for manipulation FASTQ and FASTA sequence files

I thought it was time for me to compile all the short command that I use on a more or less regular basis to manipulate sequence files. Convert a multi-line fasta to a singleline fasta

  To convert a fastq file to fasta in a single line using sed

  Dirty way to […]

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