CrocoBLAST: Running BLAST efficiently in the age of next-generation sequencing
Language English Country Great Britain, England Media print
Document type Journal Article
PubMed
29036546
DOI
10.1093/bioinformatics/btx465
PII: 4004881
Knihovny.cz E-resources
- MeSH
- Escherichia coli genetics MeSH
- Genomics methods MeSH
- Microbiota genetics MeSH
- Sequence Analysis, DNA methods MeSH
- Sequence Analysis, Protein methods MeSH
- Software * MeSH
- High-Throughput Nucleotide Sequencing methods MeSH
- Publication type
- Journal Article MeSH
SUMMARY: CrocoBLAST is a tool for dramatically speeding up BLAST+ execution on any computer. Alignments that would take days or weeks with NCBI BLAST+ can be run overnight with CrocoBLAST. Additionally, CrocoBLAST provides features critical for NGS data analysis, including: results identical to those of BLAST+; compatibility with any BLAST+ version; real-time information regarding calculation progress and remaining run time; access to partial alignment results; queueing, pausing, and resuming BLAST+ calculations without information loss. AVAILABILITY AND IMPLEMENTATION: CrocoBLAST is freely available online, with ample documentation (webchem.ncbr.muni.cz/Platform/App/CrocoBLAST). No installation or user registration is required. CrocoBLAST is implemented in C, while the graphical user interface is implemented in Java. CrocoBLAST is supported under Linux and Windows, and can be run under Mac OS X in a Linux virtual machine. CONTACT: jkoca@ceitec.cz. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
Biophysics Institute Federal University of Rio de Janeiro Rio de Janeiro RJ 21941 092 Brazil
CEITEC Central European Institute of Technology Masaryk University
National Centre for Biomolecular Research Masaryk University 601 77 Brno Czech Republic
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