Paket: seer (1.1.4-7)

[ Källkod: 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.

Andra paket besläktade med seer

• dep: libarmadillo11 (>= 1:11.4.2+dfsg)

  streamlined C++ linear algebra library

• dep: libblas3

  Basic Linear Algebra Reference implementations, shared library

  eller libblas.so.3

  virtuellt paket som tillhandahålls av libatlas3-base, libblas3, libblis4-openmp, libblis4-pthread, libblis4-serial, libopenblas0-openmp, libopenblas0-pthread, libopenblas0-serial

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

  program options library for C++

• dep: libc6 (>= 2.34)

  GNU C-bibliotek: Delade bibliotek
  också ett virtuellt paket som tillhandahålls av libc6-udeb

• dep: libgcc-s1 (>= 3.0) [amd64, s390x]

  GCC stödbibliotek

  dep: libgcc-s1 (>= 3.4.4) [ppc64el]

  dep: libgcc-s1 (>= 3.5) [armel, armhf]

  dep: libgcc-s1 (>= 4.2) [mipsel]

  dep: libgcc-s1 (>= 4.5) [arm64, mips64el]

  dep: libgcc-s1 (>= 7) [i386]

• 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 (>= 12) [armel]

  GNU standardbibliotek v3 för C++

  dep: libstdc++6 (>= 12.2.0-9) [ej armel]

• dep: libtext-csv-perl

  comma-separated values manipulator (using XS or PurePerl)

• dep: zlib1g (>= 1:1.1.4)

  Kompressionsbibliotek - körtidspaket

• sug: fsm-lite

  frequency-based string mining (lite)

Hämta seer

Hämtningar för alla tillgängliga arkitekturer

Arkitektur	Paketstorlek	Installerad storlek	Filer
amd64	1.148,3 kbyte	4.815,0 kbyte	[filförteckning]
arm64	1.096,1 kbyte	4.835,0 kbyte	[filförteckning]
armel	1.080,2 kbyte	4.830,0 kbyte	[filförteckning]
armhf	1.072,6 kbyte	4.254,0 kbyte	[filförteckning]
i386	1.153,0 kbyte	4.822,0 kbyte	[filförteckning]
mips64el	1.126,0 kbyte	5.371,0 kbyte	[filförteckning]
mipsel	1.112,5 kbyte	5.154,0 kbyte	[filförteckning]
ppc64el	1.155,0 kbyte	5.283,0 kbyte	[filförteckning]
s390x	1.106,6 kbyte	4.891,0 kbyte	[filförteckning]