CrocoBLAST: Running BLAST efficiently in the age of
next-generation sequencing

J 2017

CrocoBLAST: Running BLAST efficiently in the age of next-generation sequencing

TRISTAO RAMOS, Ravi José, Allan Cézar DE AZEVEDO MARTINS, Gabrielle DA SILVA DELGADO, Crina-Maria IONESCU, Peter Turán ÜRMÉNYI et. al.

Základní údaje

Originální název

CrocoBLAST: Running BLAST efficiently in the age of next-generation sequencing

Autoři

TRISTAO RAMOS, Ravi José (76 Brazílie, domácí), Allan Cézar DE AZEVEDO MARTINS (76 Brazílie), Gabrielle DA SILVA DELGADO (76 Brazílie), Crina-Maria IONESCU (642 Rumunsko, domácí), Peter Turán ÜRMÉNYI (76 Brazílie), Rosane SILVA (76 Brazílie) a Jaroslav KOČA (203 Česká republika, garant, domácí)

Vydání

Bioinformatics, Oxford, Oxford University Press, 2017, 1367-4803

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10201 Computer sciences, information science, bioinformatics

Stát vydavatele

Velká Británie a Severní Irsko

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 5.481

Kód RIV

RIV/00216224:14310/17:00099996

Organizační jednotka

Přírodovědecká fakulta

DOI

http://dx.doi.org/10.1093/bioinformatics/btx465

UT WoS

000415074800020

Klíčová slova anglicky

sequence analysis; genomics; genome annotation; BLAST

Štítky

NZ, rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 30. 3. 2018 22:43, Ing. Nicole Zrilić

Anotace

V originále

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. 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.

Návaznosti

LQ1601, projekt VaV

Název: CEITEC 2020 (Akronym: CEITEC2020)

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, CEITEC 2020

Citovat

TRISTAO RAMOS, Ravi José, Allan Cézar DE AZEVEDO MARTINS, Gabrielle DA SILVA DELGADO, Crina-Maria IONESCU, Peter Turán ÜRMÉNYI, Rosane SILVA a Jaroslav KOČA. CrocoBLAST: Running BLAST efficiently in the age of next-generation sequencing. Bioinformatics. Oxford: Oxford University Press, 2017, roč. 33, č. 22, s. 3648-3651. ISSN 1367-4803. Dostupné z: https://dx.doi.org/10.1093/bioinformatics/btx465.

@article{1408017,
   author = {Tristao Ramos, Ravi José and de Azevedo Martins, Allan Cézar and da Silva Delgado, Gabrielle and Ionescu, CrinaandMaria and Ürményi, Peter Turán and Silva, Rosane and Koča, Jaroslav and de Azevedo Martins, Allan Cézar and da Silva Delgado, Gabrielle},
   article_location = {Oxford},
   article_number = {22},
   doi = {http://dx.doi.org/10.1093/bioinformatics/btx465},
   keywords = {sequence analysis; genomics; genome annotation; BLAST},
   language = {eng},
   issn = {1367-4803},
   journal = {Bioinformatics},
   title = {CrocoBLAST: Running BLAST efficiently in the age of next-generation sequencing},
   url = {https://academic.oup.com/bioinformatics/article-abstract/33/22/3648/4004881},
   volume = {33},
   year = {2017}
}

TY  - JOUR
ID  - 1408017
AU  - Tristao Ramos, Ravi José - de Azevedo Martins, Allan Cézar - da Silva Delgado, Gabrielle - Ionescu, Crina-Maria - Ürményi, Peter Turán - Silva, Rosane - Koča, Jaroslav - de Azevedo Martins, Allan Cézar - da Silva Delgado, Gabrielle
PY  - 2017
TI  - CrocoBLAST: Running BLAST efficiently in the age of next-generation sequencing
JF  - Bioinformatics
VL  - 33
IS  - 22
SP  - 3648-3651
EP  - 3648-3651
PB  - Oxford University Press
SN  - 13674803
KW  - sequence analysis
KW  - genomics
KW  - genome annotation
KW  - BLAST
UR  - https://academic.oup.com/bioinformatics/article-abstract/33/22/3648/4004881
L2  - https://academic.oup.com/bioinformatics/article-abstract/33/22/3648/4004881
N2  - 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. 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.
ER  -

TRISTAO RAMOS, Ravi José, Allan Cézar DE AZEVEDO MARTINS, Gabrielle DA SILVA DELGADO, Crina-Maria IONESCU, Peter Turán ÜRMÉNYI, Rosane SILVA a Jaroslav KOČA. CrocoBLAST: Running BLAST efficiently in the age of next-generation sequencing. \textit{Bioinformatics}. Oxford: Oxford University Press, 2017, roč.~33, č.~22, s.~3648-3651. ISSN~1367-4803. Dostupné z: https://dx.doi.org/10.1093/bioinformatics/btx465.

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