Supporting data for "ASaiM: a Galaxy-based framework to analyze microbiota data"

Dataset type: Metagenomic, Workflow, Software
Data released on May 17, 2018

Batut B; Gravouil K; Defois C; Hiltemann S; Brugère J; Peyretaillade E; Peyre P (2018): Supporting data for "ASaiM: a Galaxy-based framework to analyze microbiota data" GigaScience Database. http://dx.doi.org/10.5524/100451

DOI10.5524/100451

New generation of sequencing platforms coupled to numerous bioinformatics tools has led to rapid technological progress in metagenomics and metatranscriptomics to investigate complex microorganism communities. Nevertheless, a combination of different bioinformatic tools remains necessary to draw conclusions out of microbiota studies. Modular and user-friendly tools would greatly improve such studies.
We therefore developed ASaiM, an Open-Source Galaxy-based framework dedicated to microbiota data analyses. ASaiM provides an extensive collection of tools to assemble, extract, explore and visualize microbiota information from raw metataxonomic, metagenomic or metatranscriptomic sequences. To guide the analyses, several customizable workflows are included and are supported by tutorials and Galaxy interactive tours, which guide users through the analyses step by step. ASaiM is implemented as Galaxy Docker flavour. It is scalable to thousands of datasets, but also can be used on a normal PC. The associated source code is available under Apache 2 license at https://github.com/ASaiM/framework and documentation can be found online (http://asaim.readthedocs.io).
Based on the Galaxy framework, ASaiM offers a sophisticated environment with a variety of tools, workflows, documentation and training to scientists working on complex microorganism communities. It makes analysis and exploration analyses of microbiota data easy, quick, transparent, reproducible and shareable.

Additional details

Read the peer-reviewed publication(s):

Batut, B., Gravouil, K., Defois, C., Hiltemann, S., Brugère, J.-F., Peyretaillade, E., & Peyret, P. (2018). ASaiM: a Galaxy-based framework to analyze microbiota data. GigaScience, 7(6). doi:10.1093/gigascience/giy057

Additional information:

http://asaim.readthedocs.io/en/latest/

https://github.com/ASaiM/framework

https://quay.io/repository/bebatut/asaim-framework





File NameSample IDData TypeFile FormatSizeRelease Date 
mixed archivearchive54.51 KB2018-05-08
mixed archivearchive3.58 MB2018-05-08
ReadmeTEXT2.08 KB2018-05-08
Displaying 1-3 of 3 File(s).
Funding body Awardee Award ID Comments
The Auvergne Regional Council B Batut
European Regional Development Fund
Date Action
May 17, 2018 Dataset publish
July 9, 2018 Manuscript Link added : 10.1093/gigascience/giy057