Question: Barcode Splitter And Clustering Analyses?
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Simon Bulman • 10 wrote:
Dear Galaxy
we have a 454 metagenomic dataset. We have used barcode splitter to
divide the dataset into it's constituent amplicons. We have also been
using a clustering application (dnaclust) in Galaxy to subdivide the
dataset by similarity. My question is; are there Galaxy tools to
allow the combining, sorting and counting of these two outputs? For
example, can each cluster - and then each sequence within that cluster
- be given an identifier.... so that one can then split the output by
barcode and summarise the data along the lines of amplicon/barcode X
has X number of sequences within cluster 1, X number of sequences
within cluster 2, ... etc? Am I making any sense?
This is the sort of problem that sounds like it is solvable in Excel
and, indeed, a UK colleague of mine has been doing just this. But is
there a straightforward means to do so in Galaxy? It is not obvious
to me in the Filtering or Sorting tools.
best wishes
Simon
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modified 7.0 years ago
by
Jennifer Hillman Jackson ♦ 25k
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written
7.0 years ago by
Simon Bulman • 10
