Question: Question About Sorting Barcoded Sequences
0
gravatar for Qingquan Liu
7.0 years ago by
Qingquan Liu10
Qingquan Liu10 wrote:
Hi, I have an Illumina HiSeq lane of sequences, in which I input multiple samples with 5-prime 6 bp barcodes. The barcodes were added in a way so that the barcodes are the first 6 bp in the reads. What I need to do is to sort my reads according to the barcodes, then clip off the barcodes and use the remaining to do mapping. Could anybody advise how I could sort my reads based on the barcodes (e.g. the first 6 base pairs) in Galaxy? Thanks a lot! Tracy
galaxy • 757 views
ADD COMMENTlink modified 7.0 years ago by Jennifer Hillman Jackson25k • written 7.0 years ago by Qingquan Liu10
0
gravatar for Jennifer Hillman Jackson
7.0 years ago by
United States
Jennifer Hillman Jackson25k wrote:
Hello Tracy, In the group "NGS: QC and manipulation -> FASTX-Toolkit for FASTQ data" there are two tools "Barcode Splitter" and "Trim sequences". Use the first tool, then the second. Instructions are on each tool's form and details are at the FASTX-Toolkit web site (link is also on the tool form). Hopefully this helps to get you started, please let us know if you have any question. Thanks for using Galaxy! Jen Galaxy team -- Jennifer Jackson http://usegalaxy.org http://galaxyproject.org/wiki/Support
ADD COMMENTlink written 7.0 years ago by Jennifer Hillman Jackson25k
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