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NCBI BLAST+ integrated into Galaxy.

ABSTRACT:

Background

The NCBI BLAST suite has become ubiquitous in modern molecular biology and is used for small tasks such as checking capillary sequencing results of single PCR products, genome annotation or even larger scale pan-genome analyses. For early adopters of the Galaxy web-based biomedical data analysis platform, integrating BLAST into Galaxy was a natural step for sequence comparison workflows.

Findings

The command line NCBI BLAST+ tool suite was wrapped for use within Galaxy. Appropriate datatypes were defined as needed. The integration of the BLAST+ tool suite into Galaxy has the goal of making common BLAST tasks easy and advanced tasks possible.

Conclusions

This project is an informal international collaborative effort, and is deployed and used on Galaxy servers worldwide. Several examples of applications are described here.

SUBMITTER: Cock PJ

PROVIDER: S-EPMC4557756 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature

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NCBI BLAST+ integrated into Galaxy.

Cock Peter J A PJ Chilton John M JM Grüning Björn B Johnson James E JE Soranzo Nicola N

GigaScience 20150825

<h4>Background</h4>The NCBI BLAST suite has become ubiquitous in modern molecular biology and is used for small tasks such as checking capillary sequencing results of single PCR products, genome annotation or even larger scale pan-genome analyses. For early adopters of the Galaxy web-based biomedical data analysis platform, integrating BLAST into Galaxy was a natural step for sequence comparison workflows.<h4>Findings</h4>The command line NCBI BLAST+ tool suite was wrapped for use within Galaxy. ...[more]

PMID: 26336600

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