Hi,
We used the generate pileup tool with consensus base calling option using
Maq. In the output, the quality scores of the bases were changed. For
example if the input score of bases in the SAM file were 'IIJIH'. They were
changed to '22321'. Is this a glitch or is this expected? Thank you.
Antony
Hi,
We used the generate pileup tool with consensus base calling option using
Maq with default options. In the output, the quality scores of the bases
were changed. For example if the input score of bases in the SAM file were
'IIJIH'. They were changed to '22321'. Is this a glitch or is this
expect
Hi,
I started a workflow yesterday (user name: antonymerlinj...@gmail.com) and
it still hasn't gone past being queued to run. In fact, no jobs are
running. Please advice. Thank you.
Antony
--
Antony M Jose,
Dept. of Cell Biology & Molecular Genetics,
University of Maryland,
Rm 2116, Bioscience R
Hi,
Bowtie and BWA jobs seem to be forever on queue, but other jobs run
normally. Is there a problem or is this expected? Thank you.
Antony
--
Antony M Jose,
Dept. of Cell Biology & Molecular Genetics,
University of Maryland,
Rm 2116, Bioscience Research Building,
College Park, MD - 20742.
has completed since this question was
> originally sent in on Saturday.
>
> If your work is urgent, a cloud instance is the recommended alternative
> for large NGS jobs:
> http://getgalaxy.org/cloud
>
> Best,
> Jen
> Galaxy team
>
>
> On 6/23/12 5:47 PM, Antony Jose
Hi,
When using the gene BED to codon BED tool, I noticed that it is not
accurately reporting the codons that make up a gene. For example, some of
the codon are missing (particularly ones that span exon-exon junctions.
Also, when changing reading frame from one exon to the next, the codons are
not
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