Hi Rui,
I should provide a 'sample metadata table', a tabular file with one
column the names of your samples, the other column the associated
metadata (e.g. type).
This is how I've done it in my DESeq2 wrapper. :-) Feel free to check
the interface at http://toolshed.bits.vib.be/view/joachim/deseq2
Cheers,
Joachim
Joachim Jacob
Contact details: http://www.bits.vib.be/index.php/about/80-team
On 09/11/2013 01:15 AM, ruiwang.sz wrote:
Hi All,
we are making a wrapper for deseq2, and there is a step where
control/experimental conditions
need to be determined. For example, it would be a column like the
following in the input file
Type
CTC
CTC
LM
LM
PT
PT
and we want the select list to contain
CTC
LM
PT
In other words, we want to filter out the 'Type' and have only
distinct ones in the select list. We could
make it in two steps, generate a intermediate file for this but it
would be nice that we could directly
retrieve the distinct types to make the list. I took a look at the
tool config wiki, but didn't see anything
(maybe because it was a quick scan). Does anyone have any tip on this?
we'll really appreciate.
Thanks,
Rui
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