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Package: clonalframe (1.2-7)

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clonalframe

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Download Source Package clonalframe:

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External Resources:

  • Homepage [www.xavierdidelot.xtreemhost.com]

Similar packages:

inference of bacterial microevolution using multilocus sequence data

ClonalFrame identifies the clonal relationships between the members of a sample, while also estimating the chromosomal position of homologous recombination events that have disrupted the clonal inheritance.

ClonalFrame can be applied to any kind of sequence data, from a single fragment of DNA to whole genomes. It is well suited for the analysis of MLST data, where 7 gene fragments have been sequenced, but becomes progressively more powerful as the sequenced regions increase in length and number up to whole genomes. However, it requires the sequences to be aligned. If you have genomic data that is not aligned, it is recommend to use Mauve which produces alignment of whole bacterial genomes in exactly the format required for analysis with ClonalFrame.

Other Packages Related to clonalframe

  • depends
  • recommends
  • suggests
  • dep: libc6 (>= 2.14) [amd64]
    GNU C Library: Shared libraries
    also a virtual package provided by libc6-udeb
    dep: libc6 (>= 2.4) [i386]
  • dep: libgcc1 (>= 1:3.0)
    GCC support library
  • dep: libgsl23
    GNU Scientific Library (GSL) -- library package
  • dep: libgslcblas0
    GNU Scientific Library (GSL) -- blas library package
  • dep: libstdc++6 (>= 5.2)
    GNU Standard C++ Library v3
  • sug: clonalframeml
    Efficient Inference of Recombination in Whole Bacterial Genomes

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Download for all available architectures
Architecture Package Size Installed Size Files
amd64 49.0 kB122 kB [list of files]
i386 53.1 kB125 kB [list of files]