Hi
I have received Illumina paired-end genome sequence data as a .tar file. When
unpacked the data for each genome accession is split into about 100 fastq
files. Total of about 37 Gpb per genome.
Can you recommend the best way to organise this data prior to mapping to
reference genome?
I can con
Dear Galaxy team,
I have a question about RNA analysis with the cufflinks package.
I have some bam files to analyze from a SOLiD platform. Some previous tests
show that these bam/sam files are different from those coming from Tophat and
cufflinks cannot assemble them using a reference annotatio
Justin:
Can you share a history with me via a link (click gear on the top rigt, choose
"share or publish" and click "Make history accessible via a link"; then e-mail
this link to me). I'll see what is happening.
Tx,
a.
Anton Nekrutenko
http://www.galaxyproject.org
On Mar 28, 2013, at 10:41
Hi All,
I want to merge the Tophat output (Accepted Hits) of Several datasets. I want
the merged BAM file has the exact format as the individual input BAM files,
should I check "Merge all component bam file headers into the merged bam file"?
Thanks.
Have a nice weekend.
Jianguang
Cuffmerge does some additional steps that Cuffcompare does not; specifically,
Cuffmerge attempts to remove assembly artifacts:
http://cufflinks.cbcb.umd.edu/manual.html#cuffmerge It's likely that the
(presumed) artifacts removed by Cuffmerge account for the differences that
you're seeing.
Best
Hi,
I have been running a tophat job and it seems to run forever, its now 24
HRS . I do not understand, is it that i have done something wrong, the
other tophat job took only 6 hrs. please help
regards,
Dipanjana
--
*Dipanjana Datta De*
*Postdoctoral Fellow*
*Department of Pharmacology and Toxico
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