eLxr packages软件包：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.
其他与 augustus 有关的软件包
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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)
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同时作为一个虚包由这些包填实： libc6-udeb
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- dep: libcolamd2 (>= 1:4.5.2)
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- dep: libgcc-s1 (>= 3.0) [amd64]
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- 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)
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- dep: libmariadb3 (>= 3.0.0)
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- dep: libmysql++3v5 (>= 3.2.5-1~)
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- dep: libsqlite3-0 (>= 3.5.9)
- SQLite 3 shared library
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- dep: libstdc++6 (>= 11)
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- rec: samtools
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- sug: cdbfasta
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- sug: diamond-aligner
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- sug: libdbd-mysql-perl
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- sug: libfile-which-perl
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- sug: libparallel-forkmanager-perl
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- sug: libyaml-perl
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- sug: python3-biopython
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