To split the samples, use "NGS: QC and manipulation -> FASTX-Toolkit for
FASTQ data --> Barcode Splitter".
Then use the "NGS: Mapping tools" to map.
Using Galaxy would allow you to build the analysis path for one of the
split samples (vs a single FASTA-format target gene), save the method as
a workflow, then re-use the workflow for the remaining samples.
Apologies for the delay in a reply,
On 3/10/11 2:43 AM, Jochen Seggewiß wrote:
10 barcoded "samples". Each sample consists of a mix of the sequences 3
independent genes (á 2 alleles).
I would like to map the SOLiD4 reads only to the sequences of those 3
genes, patient by patient.
First, the 10 barcoded samples have to be separated from each other.
Then, the short reads have to be mapped to the sequences of the 3 genes,
which are available in FASTA-format (single) or multi-FASTA-format (all
sequences in one file).
Is this possible using the available GALAXY tools?
Thank you in advance.
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
. Please keep all replies on the list by
using "reply all" in your mail client. For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:
To manage your subscriptions to this and other Galaxy lists,
please use the interface at: