This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Applying Fastqc On A Published Dataset

Hi all, I want to apply fastqc over the raw dataset of this paper : Transcriptome genetics using second generation sequencing in a Caucasian population web link: http://www.nature.com/nature/journal/v464/n7289/abs/nature08903.html

I have found its fastq files here: http://jungle.unige.ch/rnaseq_CEU60/

is it enough if I only download the Fastq Data saved in the 3 files named : Fastq E-MATB-197 and apply the fastqc?

fastqc
• 2,946 views • link
updated by JC JC • written by narges • narges

2 answers

You really need to ask this directly from the authors of the paper. See the corresponding authors.

• 0 views • link
written by Istvan Albert Istvan Albert

Thank you for the answer

• 0 views • link
written by narges • narges

Yes, FastQC only needs the Fastq files. The data is public, so you can re-analyze it. A ~60 human samples (50GB) is a big data set, do you really want to process it? Are you benchmarking your systems?

• 0 views • link
written by JC JC

thank you, yes i do not have any technical problem for analyzing, I want to apply the TopHat and then the cufflinks so I decided to do even the basic analysis.

• 0 views • link
written by narges • narges

Log in to answer this question.

More posts like this