Paketti: seer (1.1.4-2 ja muut)

[ Source: 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.

Muut pakettiin seer liittyvät paketit

• dep: libarmadillo9 (>= 1:9.100.6+dfsg)

  streamlined C++ linear algebra library

• dep: libblas3

  Basic Linear Algebra Reference implementations, shared library

  tai libblas.so.3

  näennäispaketti, jonka toteuttaa libatlas3-base, libblas3, libblis2-openmp, libblis2-pthread, libblis2-serial, libopenblas-base

• dep: libboost-program-options1.67.0

  program options library for C++

• dep: libc6 (>= 2.4)

  GNU-C-kirjasto: jaetut kirjastot
  myös näennäispaketti, jonka toteuttaa libc6-udeb

• dep: libgcc1 (>= 1:3.5)

  GCC:n apukirjasto

• dep: libgzstream0 (>= 1.5+dfsg)

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

• dep: libhdf5-103

  Hierarchical Data Format 5 (HDF5) - runtime files - serial version

• dep: liblapack3

  Library of linear algebra routines 3 - shared version

  tai liblapack.so.3

  näennäispaketti, jonka toteuttaa libatlas3-base, liblapack3, libopenblas-base

• dep: libstdc++6 (>= 7)

  GNU standardi C++ -kirjasto, versio 3

• dep: libtext-csv-perl

  comma-separated values manipulator (using XS or PurePerl)

• dep: zlib1g (>= 1:1.1.4)

  pakkauskirjaston ajonaikaistiedostot

• sug: fsm-lite

  frequency-based string mining (lite)

Imuroi seer

Imurointi kaikille saataville arkkitehtuureille

Arkkitehtuuri	Versio	Paketin koko	Koko asennettuna	Tiedostot
armhf	1.1.4-2+b2	320.1 kt	1,039.0 kt	[tiedostoluettelo]