Forum: Bioinformatics
06-10-2011, 02:02 AM
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Replies: 27
Views: 9,978
Thanks ECO.. it was original. (=
In any...
Thanks ECO.. it was original. (=
In any case, I'll have a look at this on monday. I don't have time to look at it until I'm back in Canada. If you haven't heard from me by then, please send me a...
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Forum: Bioinformatics
06-09-2011, 06:00 AM
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Replies: 27
Views: 9,978
That is some serious spam above - and worse,...
That is some serious spam above - and worse, copied from my own blog!
Anyhow, can you paste the first line of the file? There's probably something simple that's going wrong, eg, you haven't...
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Forum: Bioinformatics
06-09-2011, 04:30 AM
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Replies: 27
Views: 9,978
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Forum: Bioinformatics
06-08-2011, 11:07 PM
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Replies: 27
Views: 9,978
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Forum: Bioinformatics
04-25-2011, 10:56 PM
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Replies: 15
Views: 3,786
Thanks Michael. I really appreciate that. (=
...
Thanks Michael. I really appreciate that. (=
I would like to clarify one thing, however. It's not that the two types of documentation can't be discussed simultaneously, but that they shouldn't be...
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Forum: Bioinformatics
04-22-2011, 04:19 PM
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Replies: 15
Views: 3,786
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Forum: Bioinformatics
04-22-2011, 02:40 PM
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Replies: 15
Views: 3,786
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Forum: Bioinformatics
04-21-2011, 11:24 AM
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Replies: 15
Views: 3,786
Open source code with multiple developers does...
Open source code with multiple developers does tend to have better documentation, by necessity.On the flip side, single person projects don't have the time or necessity to documenting everything. ...
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Forum: Bioinformatics
04-21-2011, 08:52 AM
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Replies: 15
Views: 3,786
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Forum: Bioinformatics
03-31-2011, 08:09 AM
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Replies: 7
Views: 2,213
That's coming directly from your file - the...
That's coming directly from your file - the aligner is using the name of the file as the chromosome. (You can even see it in the snippet you gave at the top of the thread for chr10.fa)
I seem to...
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Forum: Bioinformatics
03-31-2011, 07:30 AM
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Replies: 7
Views: 2,213
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Forum: Bioinformatics
03-25-2011, 09:12 AM
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Replies: 7
Views: 2,213
It's available from the svn repository. There...
It's available from the svn repository. There are instructions here: http://sourceforge.net/apps/mediawiki/vancouvershortr/index.php?title=VSRAPBuilding
use svn to get a copy of the source, and...
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Forum: Bioinformatics
03-25-2011, 07:25 AM
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Replies: 7
Views: 2,213
Hi Adam,
This may be a little more...
Hi Adam,
This may be a little more technically challenging, but would you be willing to compile and run from source? I suspect that this problem has been solved in the latest version, which has...
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Forum: Bioinformatics
02-23-2011, 08:34 AM
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Replies: 4
Views: 2,990
Exome reads are usually aligned against the...
Exome reads are usually aligned against the genome because they are captured from DNA, so, for the most part, you will not have exon-exon junctions in your data set. I'm not quite clear what it is...
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Forum: Bioinformatics
02-22-2011, 09:06 PM
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Replies: 3
Views: 3,190
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Forum: Bioinformatics
02-22-2011, 08:48 PM
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Replies: 4
Views: 2,990
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Forum: Bioinformatics
07-14-2010, 12:20 PM
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Replies: 57
Views: 38,759
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Forum: Bioinformatics
05-20-2010, 08:14 AM
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Replies: 57
Views: 38,759
Hi Miltron,
Unfortunately, there isn't. ...
Hi Miltron,
Unfortunately, there isn't. This is simply because it was the easiest way to do the sorting required by other applications in my suite, back when the standard alignment formats...
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Forum: Epigenetics
03-19-2010, 10:14 AM
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Replies: 9
Views: 6,282
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Forum: Bioinformatics
02-17-2010, 10:23 AM
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Replies: 57
Views: 38,759
Well, I'm not sure what the problem is, then. I...
Well, I'm not sure what the problem is, then. I haven't ever seen that error being given for any other reasons than the ones I've suggested. If you could cut and paste a few lines before the error...
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Forum: Bioinformatics
02-17-2010, 09:47 AM
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Replies: 57
Views: 38,759
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Forum: Bioinformatics
02-17-2010, 09:39 AM
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Replies: 57
Views: 38,759
Hi Genbio,
Thanks for the information,...
Hi Genbio,
Thanks for the information, however, what I'm actually looking for is the error you're observing. If it's caused by java, it should give information about where in the code the error...
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Forum: Bioinformatics
02-17-2010, 09:26 AM
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Replies: 57
Views: 38,759
I've never seen that problem before. Could you...
I've never seen that problem before. Could you provide the full output of the error for me, otherwise I don't know where to begin looking to solve this problem. Java normally gives more verbose...
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Forum: Bioinformatics
01-08-2010, 11:08 AM
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Replies: 2
Views: 1,485
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Forum: Bioinformatics
01-08-2010, 10:57 AM
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Replies: 8
Views: 8,997
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