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Forum: Bioinformatics 04-29-2011, 09:28 PM
Replies: 16
Views: 5,966
Posted By Awesome
Assuming you have the images saved... You...

Assuming you have the images saved...

You probably should have just removed the first cycle from image analysis and basecalling by using the command-line arguments. There isn't really a need to...
Forum: Bioinformatics 02-17-2011, 05:57 PM
Replies: 14
Views: 8,284
Posted By Awesome
I have the same problem. I would also like to...

I have the same problem. I would also like to know the solution. Thanks.
Forum: De novo discovery 12-22-2010, 04:17 PM
Replies: 5
Views: 4,871
Posted By Awesome
To do SNP calling, the standard procedure is to...

To do SNP calling, the standard procedure is to map reads to a reference genome. Then you look at your pileup (i.e. the base frequencies and associated quality scores for every position) and find...
Forum: Bioinformatics 12-21-2010, 02:04 PM
Replies: 16
Views: 5,966
Posted By Awesome
I need to be able to store and retrieve base...

I need to be able to store and retrieve base calls, quality scores, intensities, and noises. That is why I'm concerned with srf2illumina.
Forum: Bioinformatics 12-20-2010, 12:18 PM
Replies: 16
Views: 5,966
Posted By Awesome
This program is a lifesaver. However, I get...

This program is a lifesaver.
However, I get this error repeatedly when I try to extract .srf files generated by your program:

Another error occurs repeatedly when using Illumina's GA 1.5.1...
Forum: Bioinformatics 11-19-2010, 11:47 AM
Replies: 1
Views: 6,723
Posted By Awesome
Thumbs up Hi Mansequencer, For some reason, MSORT...

Hi Mansequencer,

For some reason, MSORT doesn't work with files over a certain size. It works just fine for small files using the command:
$ msort -k 8,n9 mapped.out > mapped.out.sort
To get...
Forum: De novo discovery 07-28-2010, 10:36 AM
Replies: 1
Views: 4,286
Posted By Awesome
I would also like to know this. And also, if...

I would also like to know this.

And also, if anyone could tell me how to run velvet on illumina's paired-end bustard qseq.txt files that would be great.
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