https://divingintogeneticsandgenomics.com/tags/qseq/ Recent content in Qseq on Chatomics Hugo -- gohugo.io en-us © 2018 Ming 'Tommy' Tang Tue, 18 Mar 2014 19:08:00 -0700 https://divingintogeneticsandgenomics.com/archive/qseq-to-fastq-conversion/ Tue, 18 Mar 2014 19:08:00 -0700 https://divingintogeneticsandgenomics.com/archive/qseq-to-fastq-conversion/ I was looking at some old ChIP-seq data with raw file in qseq format. I want to convert them to fastq file for mapping with bowtie. A quick google I found: http://www.biostars.org/p/6682/ the qseqtofastq C++ program http://www.dna.bio.keio.ac.jp/~krisp/qseq2fastq/ has to be compiled by scons, and I encountered some compiling problem. I gave it up and used this java program http://sourceforge.net/projects/snpeff/files/qseq2fastq.jar/download Usage: zcat myfile.qseq.tgz | java -jar qseqtofastq.jar -phred64 > myfile.fastq it took me around 1 hour to finish the conversion of a 600MB tgz file on the computing cluster (single cpu 4GB ram).