Improve your Galaxy text life: The Query Tabular Tool.

Improve your Galaxy text life: The Query Tabular Tool. F1000Res. 2018;7:1604 Authors: Johnson JE, Kumar P, Easterly C, Esler M, Mehta S, Eschenlauer AC, Hegeman AD, Jagtap PD, Griffin TJ Abstract Galaxy provides an accessible platform where multi-step data analysis workflows integrating disparate software can be run, even by researchers with limited programming expertise.  Applications of such sophisticated workflows are many, including those which integrate software from different 'omic domains (e.g. genomics, proteomics, metabolomics). In these complex workflows, intermediate outputs are often generated as tabular text files, which must be transformed into customized formats which are compatible with the next software tools in the pipeline.  Consequently, many text manipulation steps are added to an already complex workflow, overly complicating the process and decreasing usability, especially for non-expert bench researchers focused on obtaining results.  In some cases, limitations to existing text manipulation are such that desired analyses can only be carried out using highly sophisticated processing steps beyond the reach of most users.  As a solution, we have developed the Query Tabular Galaxy tool, which leverages a SQLite database generated from tabular input data.  This database can be queried and manipulated to produce transformed and customized tabular outputs compatible with downstream processing steps.  Regular exp...
Source: Genomics Proteomics ... - Category: Genetics & Stem Cells Authors: Tags: F1000Res Source Type: research