Paket: augustus (3.3.2+dfsg-2)

[ Källkod: augustus  ]

gene prediction in eukaryotic genomes

AUGUSTUS is a software for gene prediction in eukaryotic genomic sequences that is based on a generalized hidden Markov model (HMM), a probabilistic model of a sequence and its gene structure. After learning gene structures from a reference annotation, AUGUSTUS uses the HMM to recognize genes in a new sequence and annotates it with the regions of identified genes. External hints, e.g. from RNA sequencing, EST or protein alignments etc. can be used to guide and improve the gene finding process. The result is the set of most likely gene structures that comply with all given user constraints, if such gene structures exist. AUGUSTUS already includes prebuilt HMMs for many species, as well as scripts to train custom models using annotated genomes.

Märken: Field: Biologi, Bioinformatics, Implemented in: implemented-in::c++, interface::commandline, Role: Program, Vetenskap: science::calculation, scope::utility, Interface Toolkit: Ncurses TUI, Purpose: use::analysing, works-with::biological-sequence

Andra paket besläktade med augustus

• dep: augustus-data

  data files for AUGUSTUS

• dep: libbamtools2.5.1

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• dep: libbz2-1.0

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• dep: libc6 (>= 2.15)

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• dep: libcurl3-nss (>= 7.23.1)

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• dep: libgcc1 (>= 1:3.0)

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• dep: libhts2 (>= 1.0)

  C library for high-throughput sequencing data formats

• dep: liblzma5 (>= 5.1.1alpha+20110809)

  XZ-format compression library

• dep: libncurses6 (>= 6)

  shared libraries for terminal handling

• dep: libssl1.1 (>= 1.1.0)

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• dep: libstdc++6 (>= 6)

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• dep: libtinfo6 (>= 6)

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• dep: zlib1g (>= 1:1.2.3.3)

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Hämtningar för alla tillgängliga arkitekturer

Arkitektur	Paketstorlek	Installerad storlek	Filer
amd64	1.134,7 kbyte	4.787,0 kbyte	[filförteckning]