Galaxy Development List Archive

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Galaxy Project

Archive for the Galaxy-Dev mailing list. If you have a question about deploying, enhancing, tuning or adding to a Galaxy instance then this is a good place to find an answer.

Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biomedical research.

  • Accessibility: Galaxy enables users without programming experience to easily specify parameters and run tools and workflows.
  • Reproducibility: Galaxy captures all information necessary so that any user can repeat and understand a complete computational analysis.
  • Transparency: Galaxy enables users to share and publish analyses via the web and create Pages--interactive, web-based documents that describe a complete analysis.
Galaxy is open source for all organizations. The public Galaxy server makes analysis tools, genomic data, tutorial demonstrations, persistent workspaces, and publication services available to any scientist that has access to the Internet. Local Galaxy servers can be set up by downloading the Galaxy application and customizing it to meet particular needs.


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Topics (9224)
Replies Last Post Views
Tool shed environment dependency - HOW TO do this? by Lukasse, Pieter
13
by Lukasse, Pieter
picard and package_picard_1_56_0 by Evan Bollig PhD
2
by Evan Bollig PhD
Galaxy Mailing Lists are moving by Nate Coraor (nate@bx...
0
by Nate Coraor (nate@bx...
Use of gzipped files in Galaxy Unit Tests by Peter Cock
2
by Peter Cock
GMOD user talks at PAG by Scott Cain
0
by Scott Cain
ulimit problems after update by Ido Tamir
2
by John Chilton-4
tools version (eg: cufflinks) and bowtie indices file by elchia
1
by Björn Grüning-3
bowtie2: no stderr output by elchia
2
by elchia
data_columns by Jorrit Boekel
2
by Jorrit Boekel
Galaxy Not Displacing History by Jeremy Liu
3
by Jeremy Liu
DecoRNAi error by Rossella Rispoli
0
by Rossella Rispoli
strange issue with .RData files by Lukasse, Pieter
6
by Ross-2
Integrating Docker-based tools within Galaxy failed by shenwiyn
2
by shenwiyn
Unable to connect two tools in workflow editor by David Kelly
2
by David Kelly
importing a large number of samples via a sample sheet by ryang
0
by ryang
Can existing SAM/BAM filter tools give me mapped/unmapped pairs? by Peter Cock
2
by Peter Cock
Galaxy's dependency on old samtools vs tools wrapping later versions? by Peter Cock
3
by Peter Cock
(no subject) by Dave Clements-2
0
by Dave Clements-2
job_working / tmp folders by Shrum, Donald C
2
by Shrum, Donald C
Login issue with a nginx proxy by Alexandre Loywick
0
by Alexandre Loywick
Problems with upload.py and changes to json.py by Robert Davidson
1
by Robert Davidson
error running cuffdiff by elchia
4
by John Chilton-4
Configuring r script galaxy tool to install on testtoolshed with dependencies in the same repository by Jeremy Liu
1
by John Chilton-4
Reducing the size of a volume in Galaxy Cloud by clarkd3
1
by Enis Afgan-2
Unable to add R package dependency to tool_dependencies.xml by bgrande
3
by Peter Cock
Test failure, JSONDecodeError: Unpaired high surrogate by Peter Cock
2
by John Chilton-4
Editing admin rights on an (empty) ToolShed repo by Peter Cock
0
by Peter Cock
ebio_deseq tool error by Sergei Manakov
0
by Sergei Manakov
Galaxy with Rocks Cluster / Submitting Job As Real User by Tim Gustafson
0
by Tim Gustafson
Role of suite_config.xml in current Tool Shed? by Peter Cock
0
by Peter Cock
Database Error When Bootstrapping Tool Shed by bgrande
0
by bgrande
Dependencies not working on toolshed? by Lukasse, Pieter
5
by Peter Cock
My CloudMan EC2 instance won't start Galaxy by Jim White
2
by Jim White
Is the "new tool repositories summary" in the monthly newsletter useful? by Dave Clements-2
5
by Dave Clements-2
Can't change working directory during tool dependency installation by bgrande
2
by bgrande
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