Thank you! Uma Chandran

From: Ian Donaldson [mailto:Ian.Donaldson@manchester.ac.uk] Sent: Wednesday, March 12, 2014 5:04 AM To: Chandran, Uma; galaxy-user@lists.bx.psu.edu Subject: RE: [galaxy-user] can galaxy analyze SOLiD XSQ dataset except csfasta/qual data?

Hi Uma,

If you look under 'NGS Mapping' there is 'Map with Bowtie for SOLiD' and 'Map with BWA for SOLiD' They take fastq, but you can use 'NGS: QC and manipulation' > 'Convert' to generate a fastq file from fastqc and qual files. Or at least you could for SOLiD4 files.

Ian

________________________________ From: galaxy-user-bounces@lists.bx.psu.edumailto:galaxy-user-bounces@lists.bx.psu.edu [galaxy-user-bounces@lists.bx.psu.edu] on behalf of Chandran, Uma [chandranur@upmc.edu] Sent: 11 March 2014 13:14 To: galaxy-user@lists.bx.psu.edumailto:galaxy-user@lists.bx.psu.edu Subject: Re: [galaxy-user] can galaxy analyze SOLiD XSQ dataset except csfasta/qual data? Are there mappers for SoLiD 5500 on Galaxy? If so, do they take csfasta files as input?

Thanks Uma Chandran