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Forum: Bioinformatics 06-17-2014, 05:05 AM
Replies: 3
Views: 1,713
Posted By nickschurch
That would be very useful - any takers?

That would be very useful - any takers?
Forum: Bioinformatics 02-20-2014, 02:16 AM
Replies: 3
Views: 1,840
Posted By nickschurch
Tophat 2.0.10 woes: Error running 'long_spanning_reads'

Hi

I know this error has been reported before for previous versions of Tophat2; well, its still happening in 2.0.10. As suggested by the tophat webpage, I've posted a report in the...
Forum: Helicos / Direct Genomics 07-10-2013, 06:43 AM
Replies: 2
Views: 23,291
Posted By nickschurch
try:...

try: http://sourceforge.net/projects/openhelisphere/
Forum: Bioinformatics 07-08-2013, 07:21 AM
Replies: 2
Views: 988
Posted By nickschurch
problem solved: ...

problem solved:

https://pypi.python.org/pypi?name=ngSeqUtils&version=1.0&:action=display
Forum: Bioinformatics 07-05-2013, 07:37 AM
Replies: 2
Views: 988
Posted By nickschurch
Switch strands of a bam file...

I have a bam file where the strand information has been unintentionally reversed. Is there an easy command in samtools for switching the strand information for every read? If not, what is the best...
Forum: Bioinformatics 07-27-2012, 05:32 AM
Replies: 8
Views: 4,955
Posted By nickschurch
I think SAMSeq can work with a range of data....

I think SAMSeq can work with a range of data. Section 10.1 of the SAM manual (http://www-stat.stanford.edu/~tibs/SAM/sam.pdf) lists several response formats, including Quantitative, Two Class, Paired...
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