SOLID & FastQC tool kit

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huma Asif

Member

Join Date: Oct 2010

Posts: 53
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#1

SOLID & FastQC tool kit

12-08-2014, 05:52 AM

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)solid2fastq.pl 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.

Regards
Tags: bwa align color solid, fastq quality, solid 4, solid 5500, solid2fastq.pl

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