BOL: Wire posts tagged with 'fastq'

Wire post by Jit

Jit — Fri, 20 Aug 2021 10:35:30 -0500

#Convert #FASTQ to FASTA and set bases of #quality lower than 20 to N $ seqtk seq -aQ64 -q20 -n N IN.fastq > OUT.fasta

Wire post by Jit

Jit — Tue, 30 Apr 2019 06:32:03 -0500

fastq-pair: Match up paired end fastq files quickly and efficiently https://github.com/linsalrob/fastq-pair #fastq-pair #fastq

Wire post by Jit

Jit — Sun, 07 Jan 2018 13:38:36 -0600

interleave fastq files https://gist.github.com/nathanhaigh/4544979 #interleave #fastq #pair #ngs #reads

Wire post by Poonam Mahapatra

Poonam Mahapatra — Wed, 03 Jan 2018 00:31:12 -0600

Convert interleaved to separate files with BBmap. $ reformat.sh in=reads.fq out1=reads_r1.fq out2=reads_r2.fq #interleave #fastq #seperate #reformat #bbmap

Wire post by Jit

Jit — Thu, 23 Nov 2017 08:23:41 -0600

Fastq 2 fasta. $ sed -n '1~4s/^@/>/p;2~4p' test.fastq > test.fasta #fastq #fasta #convert

Wire post by Jit

Jit — Wed, 08 Nov 2017 12:05:57 -0600

Get the reads in fastq file: awk '{s++}END{print s/4}' file.fastq #reads #count #ngs #fastq

Wire post by Abhimanyu Singh

Abhimanyu Singh — Thu, 11 May 2017 10:43:18 -0500

fastq to fasta convertor $ sed -n '1~4s/^@/>/p;2~4p' test.fastq > test.fasta #Convert #Fasta #Fastq #fa #fq