Hello Richard,
The coordinates have a zero-based start. Add +1 to the start, do nothing
to the end, and the bases included will match up with any visualization
tool where the first base is labeled 1.
The data:
chr10 1056309 1056310 G C +
start = 1056309 + 1 = 1056310
end = 1056310
SNP is a
Hi,
I am a new user of Galaxy.
I want to analyze whole human exome data with Galaxy and cannot upload the
files (10 Gb each) to the server.
Should I install Galaxy on a PC, and work in Unix environment, or there is a
more comfortable way?
If I should install it - what should be the computer
Hello Aarti,
On 9/12/11 1:26 AM, Aarti Desai wrote:
Hi Jennifer,
I have previously used the web version of Galaxy for doing some RNASeq analysis
and I loved it!
I now have some more RNASeq and ChIPSeq data I want to analyze using Galaxy,
but the file sizes are more than 2GB and hence am
Hi Aarti,
I also tried to upload big files (10 Gb) to the Galaxy through FTP,
according to the instructions, but my internet is too slow and it didn't
succeed (I left the computer open for days, but it always crashed in the
middle). Therefore, I want to install Galaxy on a single computer, and
Dear Galaxy Users,I have a data set, for which I'm trying to Clip adapter
sequences. After splitting the generated data based on different Barcode
sequences, I clip the adapter sequences off. This method worked for all the
other data sets that I worked with, but seems to act up with one particular
On Mon, Sep 12, 2011 at 5:20 PM, Lilach F lilac...@gmail.com wrote:
Hi Jennifer,
I already tried 2 weeks ago to upload my whole exome data by FTP, according
to the instructions you sent below. The files are too big, it should take
days for each file, and it always stops in the middle after 12
Thank you very much for the big help!
Lilach
2011/9/12 Peter Cock p.j.a.c...@googlemail.com
On Mon, Sep 12, 2011 at 5:20 PM, Lilach F lilac...@gmail.com wrote:
Hi Jennifer,
I already tried 2 weeks ago to upload my whole exome data by FTP,
according
to the instructions you sent below.
Hi Peter,
Thank you very much for the help!
Another question:
What type of instance I should select in order to analyze 2 whole exomes, 20
Gb each (total: 40 Gb)?
Thanks,
Lilach
2011/9/12 Lilach F lilac...@gmail.com
Thank you very much for the big help!
Lilach
2011/9/12 Peter Cock
Diana:
It is best to direct such requests to galaxy-u...@bx.psu.edu mailing list,
which I am doing. Adding this genome should be possible, but will take us some
time.
Thanks,
anton
Anton Nekrutenko
http://galaxyproject.org
On Sep 12, 2011, at 1:23 PM, Diana Cox-Foster wrote:
Hi,
Hi,
I would like to run Unified Genotyper on a region of a BAM file, I
see the advance option A list of genomic intervals over which to
operate exist and seems to be what I need. The problem is I only get
a drop-down menu with the single option Selection is optional, which
I don't understand.
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