메뉴 건너뛰기




Volumn 28, Issue 19, 2012, Pages 2412-2416

MolBioLib: A C++11 framework for rapid development and deployment of bioinformatics tasks

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ARTICLE; BIOLOGY; COMPUTER LANGUAGE; COMPUTER PROGRAM; FACTUAL DATABASE; GENOMICS; METHODOLOGY; SEQUENCE ANALYSIS;

EID: 84867316609     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/bts458     Document Type: Article
Times cited : (7)

References (42)
  • 1
    • 79958151996 scopus 로고    scopus 로고
    • BamTools: a C++ API and toolkit for analyzing and managing BAM files
    • Barnett,D.W. et al. (2011) BamTools: a C++ API and toolkit for analyzing and managing BAM files. Bioinformatics, 27, 1691-1692.
    • (2011) Bioinformatics , vol.27 , pp. 1691-1692
    • Barnett, D.W.1
  • 2
    • 0036144823 scopus 로고    scopus 로고
    • ARACHNE: a whole-genome shotgun assembler
    • Batzoglou,S. et al. (2002) ARACHNE: a whole-genome shotgun assembler. Genome Res., 12, 177-189.
    • (2002) Genome Res , vol.12 , pp. 177-189
    • Batzoglou, S.1
  • 3
    • 84867325237 scopus 로고    scopus 로고
    • Clang. Clang: a C language family frontend for LLVM. llvm.org
    • Clang. (2012) Clang: a C language family frontend for LLVM. llvm.org.
    • (2012)
  • 4
    • 0014797273 scopus 로고
    • A relational model of data for large shared data banks
    • Codd,E.F. (1970) A relational model of data for large shared data banks. Commun. ACM, 13, 377-387.
    • (1970) Commun. ACM , vol.13 , pp. 377-387
    • Codd, E.F.1
  • 5
    • 39549090389 scopus 로고    scopus 로고
    • SeqAn-an efficient, generic C++ library for sequence analysis
    • doi:10.1186/1471-2105-9-11
    • Döring,A. et al. (2008) SeqAn-an efficient, generic C++ library for sequence analysis. BMC Bioinfromatics, 9, doi:10.1186/1471-2105-9-11.
    • (2008) BMC Bioinfromatics , vol.9
    • Döring, A.1
  • 6
    • 33748659203 scopus 로고    scopus 로고
    • Improved peak detection in mass spectrum by incorporating continuous wavelet transform-based pattern matching
    • Du,P. et al. (2006) Improved peak detection in mass spectrum by incorporating continuous wavelet transform-based pattern matching. Bioinformatics, 22, 2059-2065.
    • (2006) Bioinformatics , vol.22 , pp. 2059-2065
    • Du, P.1
  • 7
    • 53249100490 scopus 로고    scopus 로고
    • Non-homogeneous models of sequence evolution in the Bio++ suite of libraries and programs
    • Dutheil,J. and Boussau,B. (2008) Non-homogeneous models of sequence evolution in the Bio++ suite of libraries and programs. BMC Evol. Biol., 8, 255.
    • (2008) BMC Evol. Biol. , vol.8 , pp. 255
    • Dutheil, J.1    Boussau, B.2
  • 10
    • 84867296450 scopus 로고    scopus 로고
    • Gcc. GCC, the GNU Compiler Collection. gcc.gnu.org
    • Gcc. (2012) GCC, the GNU Compiler Collection. gcc.gnu.org.
    • (2012)
  • 12
    • 84867304798 scopus 로고    scopus 로고
    • Helicos. Helicos BioSciences Corporation, Cambridge, Massachusetts
    • Helicos. (2010) Helisphere User's Guide. Helicos BioSciences Corporation, Cambridge, Massachusetts.
    • (2010) Helisphere User's Guide
  • 14
    • 0037267048 scopus 로고    scopus 로고
    • Whole-genome sequence assembly for mammalian genomes: Arachne 2
    • Jaffe,D.B. et al. (2003) Whole-genome sequence assembly for mammalian genomes: Arachne 2. Genome Res., 13, 91-96.
    • (2003) Genome Res , vol.13 , pp. 91-96
    • Jaffe, D.B.1
  • 15
    • 84867325240 scopus 로고    scopus 로고
    • C++ Reference Guide|Variadic Templates
    • Kalev,D. (2008) C++ Reference Guide|Variadic Templates, Part III-Critique | InformIT. http://www.informit.com/guides/content.aspx?g=cplusplus&seqNum=399.
    • (2008) Part III-Critique | InformIT
    • Kalev, D.1
  • 17
    • 57449100870 scopus 로고    scopus 로고
    • Design and analysis of ChIP-seq experiments for DNA-binding proteins
    • Kharchenko,P.V. et al. (2008) Design and analysis of ChIP-seq experiments for DNA-binding proteins. Nat. Biotechnol., 26, 1351-1359.
    • (2008) Nat. Biotechnol. , vol.26 , pp. 1351-1359
    • Kharchenko, P.V.1
  • 18
    • 70350568326 scopus 로고    scopus 로고
    • Systematic and single cell analysis of Xenopus Piwiinteracting RNAs and Xiwi
    • Lau,N.C. et al. (2009) Systematic and single cell analysis of Xenopus Piwiinteracting RNAs and Xiwi. EMBO J., 28, 2945-2958.
    • (2009) EMBO J , vol.28 , pp. 2945-2958
    • Lau, N.C.1
  • 19
    • 68549104404 scopus 로고    scopus 로고
    • The sequence alignment/map format and SAMtools
    • Li,H. et al. (2009) The sequence alignment/map format and SAMtools. Bioinformatics, 25, 2078-2079.
    • (2009) Bioinformatics , vol.25 , pp. 2078-2079
    • Li, H.1
  • 21
    • 84867296451 scopus 로고    scopus 로고
    • Available at (last accessed June 12, 2012)
    • Majoros,B. (2012) TIGR++. Available at www.cbcb.umd.edu/software/pirate/tigr++.shtml (last accessed June 12, 2012).
    • (2012) TIGR++
    • Majoros, B.1
  • 22
    • 77956295988 scopus 로고    scopus 로고
    • The genome analysis toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data
    • McKenna,A. et al. (2010) The genome analysis toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. Genome Res., 20, 1297-1303.
    • (2010) Genome Res , vol.20 , pp. 1297-1303
    • McKenna, A.1
  • 23
    • 84867325239 scopus 로고    scopus 로고
    • Available at (last accessed June 12, 2012)
    • Mercer,S.J. (2012) Net Bio FAQ. Available at bio.codeplex.com/wikipage?title=FAQ (last accessed June 12, 2012).
    • (2012) Net Bio FAQ
    • Mercer, S.J.1
  • 24
    • 46249106990 scopus 로고    scopus 로고
    • Mapping and quantifying mammalian transcriptomes by RNA-Seq
    • Mortazavi,A. et al. (2008) Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat. Methods, 5, 621-628.
    • (2008) Nat. Methods , vol.5 , pp. 621-628
    • Mortazavi, A.1
  • 25
    • 79955550445 scopus 로고    scopus 로고
    • A user's guide to the encyclopedia of DNA elements (ENCODE)
    • Myers,R.M. et al. (2011) A user's guide to the encyclopedia of DNA elements (ENCODE). PLoS Biol., 9, e1001046.
    • (2011) PLoS Biol , vol.9
    • Myers, R.M.1
  • 26
    • 35448955692 scopus 로고    scopus 로고
    • Valgrind: a framework for heavyweight dynamic binary instrumentation
    • Nethercote,N. and Seward,J. (2007) Valgrind: a framework for heavyweight dynamic binary instrumentation. In ACM SIGPLAN 2007 Conference on
    • (2007) ACM SIGPLAN 2007 Conference on
    • Nethercote, N.1    Seward, J.2
  • 28
    • 84867296453 scopus 로고    scopus 로고
    • Oracle. Java-the Java application launcher
    • Oracle. (2011) Java-the Java application launcher. Vol 2012. http://docs.oracle.-com/javase/6/docs/technotes/tools/solaris/java.html.
    • (2011) , vol.2012
  • 29
    • 84867304799 scopus 로고    scopus 로고
    • Outercurve. Available at bio.codeplex.-com (last accessed June 12, 2012)
    • Outercurve. (2012) NET Bio. Outercurve Foundation. Available at bio.codeplex.-com (last accessed June 12, 2012).
    • (2012) NET Bio. Outercurve Foundation.
  • 31
    • 77953988297 scopus 로고    scopus 로고
    • Using Valgrind to detect undefined value errors with bit-precision
    • Anaheim, California, USA
    • Seward,J. and Nethercote,N. (2005) Using Valgrind to detect undefined value errors with bit-precision. In UNSENIX '05 Annual Technical Conference, Anaheim, California, USA.
    • (2005) UNSENIX '05 Annual Technical Conference
    • Seward, J.1    Nethercote, N.2
  • 32
    • 81755172055 scopus 로고    scopus 로고
    • Functional analysis of the microtubule-interacting transcriptome
    • Sharp,J.A. et al. (2011) Functional analysis of the microtubule-interacting transcriptome. Mol. Biol. Cell, 22, 4312-4323.
    • (2011) Mol. Biol. Cell , vol.22 , pp. 4312-4323
    • Sharp, J.A.1
  • 33
    • 61649083057 scopus 로고    scopus 로고
    • BioMart-biological queries made easy
    • Smedley,D. et al. (2009) BioMart-biological queries made easy. BMC Genom., 10, 22.
    • (2009) BMC Genom , vol.10 , pp. 22
    • Smedley, D.1
  • 34
    • 79953724351 scopus 로고    scopus 로고
    • Next-generation sequencing strategies enable routine detection of balanced chromosome rearrangements for clinical diagnostics and genetic research
    • Talkowski,M.E. et al. (2011) Next-generation sequencing strategies enable routine detection of balanced chromosome rearrangements for clinical diagnostics and genetic research. Am. J. Hum. Genet., 88, 469-481.
    • (2011) Am. J. Hum. Genet. , vol.88 , pp. 469-481
    • Talkowski, M.E.1
  • 35
    • 0344464730 scopus 로고    scopus 로고
    • libsequence: a C++ class library for evolutionary genetic analysis
    • Thornton,K. (2003) libsequence: a C++ class library for evolutionary genetic analysis. Bioinformatics, 19, 2325-2327.
    • (2003) Bioinformatics , vol.19 , pp. 2325-2327
    • Thornton, K.1
  • 36
    • 84856106400 scopus 로고    scopus 로고
    • GenomicTools: a computational platform for developing high-throughput analytics in genomics
    • Tsirigos,A. et al. (2012) GenomicTools: a computational platform for developing high-throughput analytics in genomics. Bioinformatics, 28, 282-283.
    • (2012) Bioinformatics , vol.28 , pp. 282-283
    • Tsirigos, A.1
  • 37
    • 84865388580 scopus 로고    scopus 로고
    • van Heesch,D. (2011) Doxygen. http://www.stack.nl/_dimitri/doxygen/index.html.
    • (2011) Doxygen
    • van Heesch, D.1
  • 38
    • 84867296452 scopus 로고    scopus 로고
    • Available at (last accessed June 12, 2012)
    • Vatakov,D. (2012) The NCBI C++ Toolkit. Available at www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC (last accessed June 12, 2012).
    • (2012) The NCBI C++ Toolkit
    • Vatakov, D.1
  • 40
    • 53849146020 scopus 로고    scopus 로고
    • Model-based analysis of ChIP-Seq (MACS)
    • Zhang,Y. et al. (2008)Model-based analysis of ChIP-Seq (MACS). Genome Biol., 9, R137.
    • (2008) Genome Biol , vol.9
    • Zhang, Y.1
  • 41
    • 78650253763 scopus 로고    scopus 로고
    • Genome-wide identification of polycomb-associated RNAs by RIP-seq
    • Zhao,J. et al. (2010) Genome-wide identification of polycomb-associated RNAs by RIP-seq. Mol. Cell, 40, 939-953.
    • (2010) Mol. Cell , vol.40 , pp. 939-953
    • Zhao, J.1
  • 42
    • 34548424709 scopus 로고    scopus 로고
    • Whole-genome mapping of histone H3 Lys4 and 27 trimethylations reveals distinct genomic compartments in human embryonic stem cells
    • Zhao,X.D. et al. (2007) Whole-genome mapping of histone H3 Lys4 and 27 trimethylations reveals distinct genomic compartments in human embryonic stem cells. Cell Stem Cell, 1, 286-298.
    • (2007) Cell Stem Cell , vol.1 , pp. 286-298
    • Zhao, X.D.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.