eLxr packagesPaketti: augustus (3.5.0+dfsg-2)
Links for augustus
Imuroi lähdekoodipaketti augustus:
Ylläpitäjät:
External Resources:
- Kotisivu [bioinf.uni-greifswald.de]
Samankaltaisia paketteja:
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.
Muut pakettiin augustus liittyvät paketit
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- dep: augustus-data
- data files for AUGUSTUS
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- dep: libbamtools2.5.2 (>= 2.5.2+dfsg)
- dynamic library for manipulating BAM (genome alignment) files
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- dep: libboost-iostreams1.74.0 (>= 1.74.0)
- Boost.Iostreams Library
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- dep: libc6 (>= 2.34)
- GNU C Library: Shared libraries
myös näennäispaketti, jonka toteuttaa libc6-udeb
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- dep: libcolamd2 (>= 1:4.5.2)
- column approximate minimum degree ordering library for sparse matrices
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- dep: libgcc-s1 (>= 3.0) [amd64]
- GCC support library
- dep: libgcc-s1 (>= 4.5) [arm64]
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- dep: libgsl27 (>= 2.7.1)
- GNU Scientific Library (GSL) -- library package
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- dep: libhts3 (>= 1.10)
- Paketti ei saatavilla
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- dep: libmariadb3 (>= 3.0.0)
- MariaDB database client library
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- dep: libmysql++3v5 (>= 3.2.5-1~)
- Paketti ei saatavilla
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- dep: libsqlite3-0 (>= 3.5.9)
- SQLite 3 shared library
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- dep: libstdc++6 (>= 11)
- GNU Standard C++ Library v3
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- rec: samtools
- Paketti ei saatavilla
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- sug: cdbfasta
- Constant DataBase indexing and retrieval tools for multi-FASTA files
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- sug: diamond-aligner
- Paketti ei saatavilla
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- sug: libdbd-mysql-perl
- Paketti ei saatavilla
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- sug: libfile-which-perl
- Perl module for searching paths for executable programs
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- sug: libparallel-forkmanager-perl
- Paketti ei saatavilla
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- sug: libyaml-perl
- YAML Ain't Markup Language
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- sug: python3-biopython
- Paketti ei saatavilla
Imuroi augustus
| Arkkitehtuuri | Paketin koko | Koko asennettuna | Tiedostot |
|---|---|---|---|
| amd64 | 2,000.1 kt | 10,856.0 kt | [tiedostoluettelo] |
| arm64 | 1,715.1 kt | 10,617.0 kt | [tiedostoluettelo] |