[galaxy-user] Removing duplicate lines from a table

Hi, I have a table and would like to remove duplicate lines based on values in the first column. Is there a simple way to do it in Galaxy? Thanks, Sebastien ___ The Galaxy User list should be used for the discussion of Galaxy analysis and o

[galaxy-user] Peak-calling with MACS from .bowtie file

Hi, I have ChIP-seq alignment files in .bowtie format and would like to perform peak-calling using MACS. However, .bowtie format doesn't seem to be supported in Galaxy. Is there a way around to have MACS analyze these files within Galaxy, or is the only option to use MACS in command line? Thank y

[galaxy-user] bigWig to wig conversion

Hi, I am wondering if it is possible to convert from bigWig to wig format in Galaxy. Sincerely, Sébastien Vigneau ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at

[galaxy-user] Importing workflow from file fails in Galaxy instance on Amazon Cloud

Hi, I can't import workflows from file on a freshly installed instance of Galaxy on Amazon Cloud. The error message is copied below. Do you have some idea on how to fix this? Thanks, Sébastien Internal Server Error > Galaxy was unable to sucessfully complete your request > URL: > http://ec2-50

[galaxy-user] Preferred way to make custom tool accessible though path

Hi, I have written a simple xml wrapper to run the UCSC *bigWigToBedGraph* tool on a custom Galaxy install on Amazon cloud. The tool works as expected in this install. The xml file itself is in /mnt/galaxy/galaxy-app/tools/myTools, but I added the bigWigToBedGraph binary to the /mnt/galaxy/tools/b

Re: [galaxy-user] Finding constitutive exons using expression data (7plusorminus 3)

Hi 7plusorminus 3, One possibility is to use the "group" tool with "max" operation, to get the highest expressed exon for each gene. Then, you may use "subtract datasets" to remove the highest expressed exons from the original dataset, and iterate to get the second highest expressed exons (which a