Hi Peter,
sounds nice, would be a great feature. For everyone else how is not using
a custom server: if you are lucky you can use the trim tool on tabs to
solve your problem.
If you want to add text to the beginning or end of a column:
- Use add column and add the text as a new column
- Then use cut to get everything in the right order
- finally join the new column with the column you want to add the text to
I hope you get what I mean and is helpful to someone
Using these tricks I have created a work flow that serves as my custom sam
to gff converter. Of course its terribly inefficient, but it gets the job
done.
thx,
Felix
> On Tue, Feb 22, 2011 at 2:28 AM, Jennifer Jackson <j...@bx.psu.edu> wrote:
>> Hi Felix,
>>
>> "Text Manipulation -> Convert delimiters to TAB" could split one field
>> into
>> more than one, but the delimiter has to be in the list ("@" is not).
>>
>> "Text Manipulation -> Cut columns" from a table is similar, but it will
>> not
>> split on a "@" either.
>>
>> "Text Manipulation -> Trim leading or trailing characters" could be use
>> for
>> this specific case, since you can trim off the end of a column based on
>> a
>> position (but again, not a specified delimiter). To prep for an entire
>> genome, you would need to break up the starting query so that the
>> chromosome
>> name lengths in any derivative queries are of a consistent length, then
>> merge back together.
>>
>> Perhaps the "@" was just an example and one of these tools will work for
>> you. If you are customizing, additions to the Tool Shed that expand the
>> native tools are always welcome! http://community.g2.bx.psu.edu
>>
>
> I've been planning to write a Galaxy tool to split a column on a given
> delimiter (e.g. @ for this example, or | for NCBI style identifiers),
> which
> would solve this use case nicely. I haven't done it yet though - so if
> anyone else wants to write such a tool first, please go ahead.
>
> Specifically I would be aiming to expose the Python split and rsplit
> string
> method functionality, so the user would have to specify the number of
> splits (or perhaps more intuitively the number of columns to make) and
> if it should start on the left (default) or on the right.
>
> Peter
>
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