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Old 12-08-2014, 05:52 AM   #1
huma Asif
Location: Japan

Join Date: Oct 2010
Posts: 53
Default SOLID & FastQC tool kit

Hello everyone,

I have SOLiD Mate pair data which I am trying to pass through QC checks. what i did so far
1) Convert XSQ to fastq (using XSQtools)
2) from bwa
can i use this fastq files with Fastqc?
3)Quality assessment - Fastqc
2) Data cleaning - Quality trimming/ using FastX tool kit
can fastq_quality_trimmer handle this format?
3) Mapping using BWA(will do)

i will be extremely thankful If anyone else out there still uses SOLiD data and can give me some details of their workflows.

huma Asif is offline   Reply With Quote

bwa align color solid, fastq quality, solid 4, solid 5500,

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