eLxr packages套件：augustus（3.5.0+dfsg-2）
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.
其他與 augustus 有關的套件
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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
同時作為一個虛擬套件由這些套件填實： 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)
- GCC support library
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- dep: libgsl27 (>= 2.7.1)
- GNU Scientific Library (GSL) -- library package
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- dep: libhts3 (>= 1.10)
- 套件暫時不可用
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- dep: libmariadb3 (>= 3.0.0)
- MariaDB database client library
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- dep: libmysql++3v5 (>= 3.2.5-1~)
- 套件暫時不可用
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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
- 套件暫時不可用
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- sug: cdbfasta
- Constant DataBase indexing and retrieval tools for multi-FASTA files
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- sug: diamond-aligner
- 套件暫時不可用
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- sug: libdbd-mysql-perl
- 套件暫時不可用
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- sug: libfile-which-perl
- Perl module for searching paths for executable programs
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- sug: libparallel-forkmanager-perl
- 套件暫時不可用
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- sug: libyaml-perl
- YAML Ain't Markup Language
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- sug: python3-biopython
- 套件暫時不可用