[galaxy-user] galaxy wiki error

Hi I find an error in the galaxy wiki page. please see Admin/Datatypes/Adding Datatypes which URL is http://wiki.g2.bx.psu.edu/Admin/Datatypes/Adding%20Datatypes datatype extension=foo type=galaxy.datatypes.tabular.Foobar display_in_upload=true/sniffer type=galaxy.datatypes.tabular.Foobar/

[galaxy-user] metagenomic workflow

Hi, I am trying to analyse my eukaryotic metagenome data using yours workflow for windshield splatter analysis. But I find several problems: 1- it is related to draw phylogeny, this tool fails always for most of my samples, reporting the error: incorrect tree structure. Tree string position

[galaxy-user] All I want is a question answered please!

Hi Crystal, The galaxy-u...@galaxy.bx.psu.edu mailing list would be the best for this question. All lists are described here: http://wiki.g2.bx.psu.edu/Support#Mailing_Lists http://wiki.g2.bx.psu.edu/Mailing%20Lists Grey jobs are scheduled to run the and aere in the queue. While they are

[galaxy-user] The GATK has a new website and forum

Hi everyone, Just a quick email to let you know that the GATK has a new website and forum. The new website, released in parallel with GATK version 2.0 (beta) features a much improved documentation system and user-friendly introductory materials for new users. Also, the forum is now integrated

[galaxy-user] cuffdiff: same gene listed with different FPKM values

Dear all, has anything like this happened to you? I compared two samples with cuffdiff and when I look at the differentially expressed genes values I have the same gene listed for 5 times with different values. E.g. sample1sample2gene 71.6837 9.76435 NM_005514 87.6456

Re: [galaxy-user] SAM Tools Pileup

Hello Kathy, To confirm, this was run on the public Main Galaxy instance at https://main.g2.bx.psu.edu/ (usegalaxy.org ?). It could be that your intervals are overlapping with a gap region (a known gap, padded with N's - there are are several classes). This could be quickly checked by