I use IGV outside of Galaxy. If you download your bam and bam index
files you can load those and your reference into IGV to visualise them.
On 04/08/2011 00:03, Jiannong Xu wrote:
Hi Jen,
I mapped illumine reads to draft genomic contigs, and try to visualize the
mapping. Is there any way I
Hello Luciano,
This was a bug, fixed in galaxy-central yesterday: changeset
4212f675f95b . You can either pull the changeset into your local
instance or wait for it to be incorporated into the next distribution
(within the next few weeks).
Next time, it would be great if you would send
Jiannong,
Hans is on right track. You can indeed visualize your data using Trackster,
Galaxy's genome browser; Trackster is available via the Visualization tab.
Here are the steps needed to visualize your dataset:
(1) Use the [FASTA Manipulation -- Compute Sequence length] tool to compute
Hi,
I'm trying to get read counts or FPKM values for my miRNA NGS data on Galaxy. I
have aligned the reads using Bowtie, but it appears that Cufflinks gives an
error when run on the Bowtie alignments (This might have something to do with
Bowtie's BAM file not being sorted). I know that Tophat
Hi,
I have been using galaxy succesfully for my work using its internal
web-server. Recently I wanted to use it over the internet and so, I
configured it with apache at /galaxy of apache's root. I followed all the
instructions in setting up the proxy redirection. But I think the
re-direction is
Dear all:
I want to transform a text file to BedGraph format and show it on UCSC
genome browser, but it seems that in galaxy I cannot assign a column that
has values in configuration screen (BedGraph format).
How should I do the above task in galaxy?
Thanks
John Wu
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