Hi Tony,
Yes, the name in the input file should match either the 'name' or
'uniquename' of the feature, and what you suggest should work.
So, you should either change the name in your input files to match
what's in your database or change the names in your database.
Deciding whether to change the name or the uniquename is
important. Usually, the 'name' is what is more meaningful for a
human reader and the 'uniquename' helps distinguish between two
features that may have the same name (e.g. an mRNA & protein
on a genome assembly). When loading, you would only choose to
match on the feature 'name' if you are certain your feature names
are unique for the organism and feature type (e.g. contig).
Otherwise, if you have two features with the same name, then you
should use the 'uniquename'.
As you have contigs from a Unigene I imagine that the names and
uniquenames of your features are probably the same and are both
unique? So, it probably doesn't matter which one you use, except
to keep in mind that you will want to put the human recognizable
name in the 'name' field.
If you are using the development version and encounter any
problems please let us know on the gmod-tripal-devel mailing
list. For the upcoming Tripal v1.0 release we have rewritten
almost all of the loaders to make them faster.
Stephen
On 10/31/2012 6:28 AM, Tony Power wrote:
Hi all,
I would like to load annotations produced by blast2go.
Nevertheless, I have a problem:
The annotations were made on contigs that have a
name different from the ones that are already in the Tripal
database, but I have a excel table that relates the names.
How would you suggest me to do? Should I, for instance,
rename all the contigs in the tripal database by using that
table, and then load the annotations? If so, what would be the
tables that I needed to change?
I see that there are two labels for the contigs, the Name and
Unique Name. Could I use that feature and change only one of
them, and then load the annotations using the changed one.
Thank you very much for your help,
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