not sure but think that they need to be in fastqsanger format to be used in the splitter. You probably have to convert them first with the groomer. But since I am only finding out Galaxy myself, maybe wait for a more user with more experience to answer your question.

bram

Bram Van den Bergh
Centre of Microbial and Plant Genetics
Department of Microbial and Molecular Systems, K.U.Leuven Kasteelpark Arenberg 20 box 2460, B-3001 Heverlee
Phone: +32 16 32 16 31 (secretariat)
Fax.: +32 16 32 19 63
www.cmpg.be
http://www.biw.kuleuven.be/dtp/cmpg/spi
Van: galaxy-user-bounces@lists.bx.psu.edu [galaxy-user-bounces@lists.bx.psu.edu] namens Du, Jianguang [jiandu@iupui.edu]
Verzonden: donderdag 9 augustus 2012 23:29
To: galaxy-user@lists.bx.psu.edu
Onderwerp: [galaxy-user] how to split paired-end dataset of FASTQ format

I downloaded RNA-seq dataset at FASTQ format from SRA of NCBI. I uploaded the dataset onto Galaxy. The dataset is paired-end. I want to split it into two datasets (one for each end) with FASTQ splitter. But the name of the dataset does not appear under "FASTQ reads". How should I do to solve this problem?

Thanks.

Jianguang