Question: Demultiplex Miseq Data With Separate Index File.
6.8 years ago by
Philip Dean • 10
Philip Dean • 10 wrote:
I am using Galaxy main site to analyse MiSeq data of pooled samples. Essentially the run produces 3 fastq files consisting of R1, R2 read files and a separate index file. They are in the format below. R1: @M00132:6:000000000-A0JG4:1:1:18014:1842 1:N:0:0 Sequence data R2: @M00132:6:000000000-A0JG4:1:1:18014:1842 2:N:0:0 Sequence data Index: @M00132:6:000000000-A0JG4:1:1:18014:1842 1:N:0:0 CTCGGT + <@@DFD I would like to use Galaxy to demultiplex the samples and then analyse them individually. I have found barcode Splitter (version 1.0.0) on Galaxy however this tool requires the index to be found at the beginning of the sequence. Therefore I am attempting to add the index sequence onto the end of the sequence read data. FASTQ joiner (version 1.0.0) joins fastq files, however the fastqs to be joint must be distinguished by a /1 or /2 at end of sequence identifiers. Does anyone have any advice or experience of demultiplexing data in this format? Thanks, Phil DISCLAIMER: The information in this message is confidential and may be legally privileged. It is intended solely for the addressee. Access to this message by anyone else is unauthorised. If you are not the intended recipient, any disclosure, copying, or distribution of the message, or any action or omission taken by you in reliance on it, is prohibited and may be unlawful. Please immediately contact the sender if you have received this message in error. Thank you.
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