augustus (3.5.0+dfsg-5build4)

Details

Core information at a glance

Distribution
ubuntu
Origin
ubuntu-stonking
Repository
https://nl.archive.ubuntu.com/ubuntu
Codename
stonking
Component
universe
Source
none
Architecture
amd64
Section
universe/science
Priority
optional
Maintainer
Ubuntu Developers <[email protected]>

Size & integrity

Byte sizes and integrity verification

Installed size
6.5 kB
Size expected
1.8 MB
Size actual
1.8 MB
Size match

Dependencies

Required package dependencies

  • libbamtools2.5.3 (>= 2.5.3+dfsg)
  • libboost-iostreams1.90.0 (>= 1.90.0)
  • libc6 (>= 2.38)
  • libcolamd3 (>= 1:7.0.1)
  • libgcc-s1 (>= 3.3.1)
  • libgsl28 (>= 2.8+dfsg)
  • libhts3t64 (>= 1.17)
  • libmysql++3t64
  • libmysqlclient24 (>= 8.4.2)
  • libsqlite3-0 (>= 3.5.9)
  • libstdc++6 (>= 14)
  • augustus-data

Suggested packages

Recommended additional packages

  • cdbfasta
  • diamond-aligner
  • libfile-which-perl
  • libparallel-forkmanager-perl
  • libyaml-perl
  • libdbd-mysql-perl
  • python3-biopython

Description

gene prediction in eukaryotic genomes

Homepage Download .deb

Tags

Package classification tags

None

Checksums

Hash values and integrity verification status

TypeActualMatch
MD526f473f5…08fa8962
SHA-131e6a25a…ea918f07
SHA-256f23e2f6f…3eb48398
SHA-512c8b17e75…92e9e470

Contents

Files and directories included

.
usr
usr/bin
usr/bin/aln2wig
usr/bin/augustus
usr/bin/bam2hints
usr/bin/bam2wig
usr/bin/compileSpliceCands
usr/bin/etraining
usr/bin/fastBlockSearch
usr/bin/filterBam
usr/bin/getSeq
usr/bin/homGeneMapping
usr/bin/joingenes
usr/bin/load2db
usr/bin/load2sqlitedb
usr/bin/pp_simScore
usr/bin/prepareAlign
usr/share
usr/share/augustus
usr/share/augustus/scripts
usr/share/augustus/scripts/README.autoAug
usr/share/augustus/scripts/SplicedAlignment.pm
usr/share/augustus/scripts/aa2nonred.pl
usr/share/augustus/scripts/add_name_to_gff3.pl
usr/share/augustus/scripts/augustify.py
usr/share/augustus/scripts/augustus2browser.pl
usr/share/augustus/scripts/augustus2gbrowse.pl
usr/share/augustus/scripts/autoAug.pl
usr/share/augustus/scripts/autoAugPred.pl
usr/share/augustus/scripts/autoAugTrain.pl
usr/share/augustus/scripts/bamToWig.py
usr/share/augustus/scripts/bedgraph2wig.pl
usr/share/augustus/scripts/blat2gbrowse.pl
usr/share/augustus/scripts/blat2hints.pl
usr/share/augustus/scripts/block2prfl.pl
usr/share/augustus/scripts/cegma2gff.pl
usr/share/augustus/scripts/checkParamArchive.pl
usr/share/augustus/scripts/checkUTR
usr/share/augustus/scripts/cleanDOSfasta.pl
usr/share/augustus/scripts/clusterAndSplitGenes.pl
usr/share/augustus/scripts/compare_masking.pl
usr/share/augustus/scripts/computeFlankingRegion.pl
usr/share/augustus/scripts/createAugustusJoblist.pl
usr/share/augustus/scripts/del_from_prfl.pl
usr/share/augustus/scripts/evalCGP.pl
usr/share/augustus/scripts/eval_dualdecomp.pl
usr/share/augustus/scripts/eval_multi_gtf.pl
usr/share/augustus/scripts/exonerate2hints.pl
usr/share/augustus/scripts/exoniphyDb2hints.pl
usr/share/augustus/scripts/extractAnno.py
usr/share/augustus/scripts/extractTranscriptEnds.pl
usr/share/augustus/scripts/filter-ppx.pl
usr/share/augustus/scripts/filterGenes.pl
usr/share/augustus/scripts/filterGenesIn.pl
usr/share/augustus/scripts/filterGenesIn_mRNAname.pl
usr/share/augustus/scripts/filterGenesOut_mRNAname.pl
usr/share/augustus/scripts/filterInFrameStopCodons.pl
usr/share/augustus/scripts/filterMaf.pl
usr/share/augustus/scripts/filterPSL.pl
usr/share/augustus/scripts/filterShrimp.pl
usr/share/augustus/scripts/filterSpliceHints.pl
usr/share/augustus/scripts/findGffNamesInFasta.pl
usr/share/augustus/scripts/findRepetitiveProtSeqs.py
usr/share/augustus/scripts/fix_in_frame_stop_codon_genes.py
usr/share/augustus/scripts/fix_joingenes_gtf.pl
usr/share/augustus/scripts/gbSmallDNA2gff.pl
usr/share/augustus/scripts/gbrowse.conf
usr/share/augustus/scripts/gbrowseold2gff3.pl
usr/share/augustus/scripts/getAnnoFasta.pl
usr/share/augustus/scripts/getAnnoFastaFromJoingenes.py
usr/share/augustus/scripts/getLinesMatching.pl
usr/share/augustus/scripts/get_loci_from_gb.pl
usr/share/augustus/scripts/gff2gbSmallDNA.pl
usr/share/augustus/scripts/gff2ps_mycustom
usr/share/augustus/scripts/gffGetmRNA.pl
usr/share/augustus/scripts/gp2othergp.pl
usr/share/augustus/scripts/gtf2aa.pl
usr/share/augustus/scripts/gtf2bed.pl
usr/share/augustus/scripts/gtf2gff.pl
usr/share/augustus/scripts/gth2gtf.pl
usr/share/augustus/scripts/hal2maf_split.pl
usr/share/augustus/scripts/helpMod.pm
usr/share/augustus/scripts/joinPeptides.pl
usr/share/augustus/scripts/join_aug_pred.pl
usr/share/augustus/scripts/join_mult_hints.pl
usr/share/augustus/scripts/maf2conswig.pl
usr/share/augustus/scripts/makeMatchLists.pl
usr/share/augustus/scripts/makeUtrTrainingSet.pl
usr/share/augustus/scripts/maskNregions.pl
usr/share/augustus/scripts/merge_masking.pl
usr/share/augustus/scripts/moveParameters.pl
usr/share/augustus/scripts/msa2prfl.pl
usr/share/augustus/scripts/new_species.pl
usr/share/augustus/scripts/opt_init_and_term_probs.pl
usr/share/augustus/scripts/optimize_augustus.pl
usr/share/augustus/scripts/parseSim4Output.pl
usr/share/augustus/scripts/partition_gtf2gb.pl
usr/share/augustus/scripts/pasapolyA2hints.pl
usr/share/augustus/scripts/peptides2alternatives.pl
usr/share/augustus/scripts/peptides2hints.pl
usr/share/augustus/scripts/phastconsDB2hints.pl
usr/share/augustus/scripts/polyA2hints.pl
usr/share/augustus/scripts/prints2prfl.pl
usr/share/augustus/scripts/pslMap.pl
usr/share/augustus/scripts/randomSplit.pl
usr/share/augustus/scripts/rename_species.pl
usr/share/augustus/scripts/retroDB2hints.pl
usr/share/augustus/scripts/rmRedundantHints.pl
usr/share/augustus/scripts/runAllSim4.pl
usr/share/augustus/scripts/samMap.pl
usr/share/augustus/scripts/scipiogff2gff.pl
usr/share/augustus/scripts/setStopCodonFreqs.pl
usr/share/augustus/scripts/simpleFastaHeaders.pl
usr/share/augustus/scripts/simplifyFastaHeaders.pl
usr/share/augustus/scripts/splitMfasta.pl
usr/share/augustus/scripts/split_wiggle.pl
usr/share/augustus/scripts/stringtie2fa.py
usr/share/augustus/scripts/summarizeACGTcontent.pl
usr/share/augustus/scripts/transMap2hints.pl
usr/share/augustus/scripts/uniquePeptides.pl
usr/share/augustus/scripts/utrgff2gbrowse.pl
usr/share/augustus/scripts/webserver-results.head
usr/share/augustus/scripts/webserver-results.tail
usr/share/augustus/scripts/weedMaf.pl
usr/share/augustus/scripts/wig2hints.pl
usr/share/augustus/scripts/wigchoose.pl
usr/share/augustus/scripts/writeResultsPage.pl
usr/share/augustus/scripts/yaml2gff.1.4.pl
usr/share/doc
usr/share/doc/augustus
usr/share/doc/augustus/changelog.Debian.gz
usr/share/doc/augustus/copyright
usr/share/man
usr/share/man/man1
usr/share/man/man1/aln2wig.1.gz
usr/share/man/man1/augustus.1.gz
usr/share/man/man1/bam2hints.1.gz
usr/share/man/man1/bam2wig.1.gz
usr/share/man/man1/compileSpliceCands.1.gz
usr/share/man/man1/etraining.1.gz
usr/share/man/man1/fastBlockSearch.1.gz
usr/share/man/man1/filterBam.1.gz
usr/share/man/man1/getSeq.1.gz
usr/share/man/man1/homGeneMapping.1.gz
usr/share/man/man1/joingenes.1.gz
usr/share/man/man1/load2db.1.gz
usr/share/man/man1/load2sqlitedb.1.gz
usr/share/man/man1/pp_simScore.1.gz
usr/share/man/man1/prepareAlign.1.gz
usr/share/doc/augustus/HISTORY.TXT.gz