Hi,
thanks for the answer.
I understand my problem: I'm using mm10 and the alignment is avaible only for
mm9, is it possible for you to fix it?
Thanks.
Jennifer
Da: Jennifer Jackson j...@bx.psu.edu
Inviato: marted? 24 settembre 2013 17:13
A: Jennifer Di
Hi Scott,
My first thought is:
1. Remove rDNA sequences (and/or other well known highly-conserved sequences to
reduce the workload in step 2).
2. Blast, then remove sequences with (say 99%) match to (say 5) genus.
(Optional if step 1 is already good enough)
For step 1:
Build a fasta
Hello Jennifer,
Yes, only hg19 and mm9 are locally cashed for the MAF tools. However,
you can also load MAF data and use that from the history with these
tools. The best way to do this is to load data by chromosome from UCSC:
http://hgdownload.cse.ucsc.edu/goldenPath/mm10/multiz60way/ the /maf
My question: How can I generate a pileup with an output of more than
8000 hits per base? I was generating pileups using the SAM tools --
Generate pileup and do not see an option to change the settings for
output. In mpileup there is a variable that looks correct, -D (Output
per-sample read
I'm trying to start a visualizer with two different files to show a person
where the variants are. Can I start IGV or something like it with multiple
files? I read the docs and didn't find anything about it. I also asked here
http://www.biostars.org/p/82032/
On the FastUnifrac webside available at the begining of the year I was able to
obtain p-values having
“unifrac_env.txt”file,
GreenGene Core as the reference tree
and “Automatically generate category mapping file” option was previously
available.
Can I have access to the previous
Hello Vioricia,
For this question, it would be best to contact the team that is hosting
the public Galaxy site, as these are tools custom to their server. The
contact information is on the bottom of the home page:
http://unifrac.colorado.edu/
Best!
Jen
Galaxy team
On 9/25/13 1:13 PM,
Hi Yan,
This is not enough information to give you a solution, but there are a
few ways to investigate the problems or submit it to use for feedback.
Is this error on the public Galaxy server at https://main.g2.bx.psu.edu
(usegalaxy.org)? Of so, you can submit a bug report of the problem and
8 matches
Mail list logo