Pakiet: seer (1.1.4-5)

[ Pakiet źródłowy: seer  ]

genomic sequence element (kmer) enrichment analysis

Bacterial genomes vary extensively in terms of both gene content and gene sequence - this plasticity hampers the use of traditional SNP-based methods for identifying all genetic associations with phenotypic variation. SEER provides a computationally scalable and widely applicable statistical method for the identification of sequence elements that are significantly enriched in a phenotype of interest. SEER is applicable to even tens of thousands of genomes by counting variable- length k-mers using a distributed string-mining algorithm. Robust options are provided for association analysis that also correct for the clonal population structure of bacteria. Using large collections of genomes of the major human pathogen Streptococcus pneumoniae, SEER identifies relevant previously characterised resistance determinants for several antibiotics.

Inne pakiety związane z seer

• dep: libarmadillo10 (>= 1:10.1.2+dfsg)

  streamlined C++ linear algebra library

• dep: libblas3

  Implementacje Basic Linear Algebra Reference, biblioteka współdzielona

  lub libblas.so.3

  pakiet wirtualny udostępniany przez libatlas3-base, libblas3, libblis3-openmp, libblis3-pthread, libblis3-serial, libopenblas0-openmp, libopenblas0-pthread, libopenblas0-serial

• dep: libboost-program-options1.74.0 (>= 1.74.0)

  program options library for C++

• dep: libc6 (>= 2.30)

  Biblioteka GNU C: biblioteki współdzielone
  również pakiet wirtualny udostępniany przez libc6-udeb

• dep: libgcc-s1 (>= 3.5)

  Biblioteka wspomagająca GCC

• dep: libgzstream0 (>= 1.5+dfsg)

  provide functionality of zlib C-library in a C++ iostream

• dep: libhdf5-103-1

  HDF5 C runtime files - serial version

• dep: libstdc++6 (>= 10.2)

  Standardowa biblioteka GNU C++, wersja 3

• dep: libtext-csv-perl

  comma-separated values manipulator (using XS or PurePerl)

• dep: zlib1g (>= 1:1.1.4)

  Biblioteka kompresyjna - pliki wykonawcze

• sug: fsm-lite

  frequency-based string mining (lite)

Pobieranie seer

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