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augustus 3.5.0%2Bdfsg-5
  • links: PTS, VCS
  • area: main
  • in suites: forky, sid, trixie
  • size: 777,052 kB
  • sloc: cpp: 80,066; perl: 21,491; python: 4,368; ansic: 1,244; makefile: 1,141; sh: 171; javascript: 32

Folder: scripts

d .. (parent)
- - rwxr-xr-x 20,556 aa2nonred.pl
- - rwxr-xr-x 3,528 add_name_to_gff3.pl
- - rwxr-xr-x 27,834 augustify.py
- - rwxr-xr-x 3,026 augustus2browser.pl
- - rwxr-xr-x 393 augustus2gbrowse.pl
- - rwxr-xr-x 54,526 autoAug.pl
- - rwxr-xr-x 23,387 autoAugPred.pl
- - rwxr-xr-x 45,632 autoAugTrain.pl
- - rwxr-xr-x 12,834 bamToWig.py
- - rwxr-xr-x 3,374 bedgraph2wig.pl
- - rwxr-xr-x 4,728 blat2gbrowse.pl
- - rwxr-xr-x 32,712 blat2hints.pl
- - rwxr-xr-x 11,325 block2prfl.pl
- - rwxr-xr-x 2,237 cegma2gff.pl
- - rwxr-xr-x 3,847 checkParamArchive.pl
- - rwxr-xr-x 539 cleanDOSfasta.pl
- - rwxr-xr-x 7,562 clusterAndSplitGenes.pl
- - rwxr-xr-x 1,657 compare_masking.pl
- - rwxr-xr-x 2,368 computeFlankingRegion.pl
- - rwxr-xr-x 7,508 createAugustusJoblist.pl
- - rwxr-xr-x 3,248 del_from_prfl.pl
- - rwxr-xr-x 9,679 evalCGP.pl
- - rwxr-xr-x 13,251 eval_dualdecomp.pl
- - rwxr-xr-x 3,401 eval_multi_gtf.pl
- - rwxr-xr-x 3,047 exonerate2hints.pl
- - rwxr-xr-x 1,305 exoniphyDb2hints.pl
- - rwxr-xr-x 4,613 extractAnno.py
- - rwxr-xr-x 511 extractTranscriptEnds.pl
- - rwxr-xr-x 450 filter-ppx.pl
- - rwxr-xr-x 854 filterGenes.pl
- - rwxr-xr-x 1,075 filterGenesIn.pl
- - rwxr-xr-x 2,915 filterGenesIn_mRNAname.pl
- - rwxr-xr-x 1,720 filterGenesOut_mRNAname.pl
- - rwxr-xr-x 1,126 filterInFrameStopCodons.pl
- - rwxr-xr-x 2,927 filterMaf.pl
- - rwxr-xr-x 17,623 filterPSL.pl
- - rwxr-xr-x 4,469 filterShrimp.pl
- - rwxr-xr-x 2,085 filterSpliceHints.pl
- - rwxr-xr-x 1,653 findGffNamesInFasta.pl
- - rwxr-xr-x 39,203 fix_in_frame_stop_codon_genes.py
- - rwxr-xr-x 3,636 fix_joingenes_gtf.pl
- - rwxr-xr-x 3,102 gbSmallDNA2gff.pl
- - rwxr-xr-x 3,773 gbrowseold2gff3.pl
- - rwxr-xr-x 7,646 getAnnoFasta.pl
- - rwxr-xr-x 11,655 getAnnoFastaFromJoingenes.py
- - rwxr-xr-x 2,042 getLinesMatching.pl
- - rwxr-xr-x 2,142 get_loci_from_gb.pl
- - rwxr-xr-x 19,305 gff2gbSmallDNA.pl
- - rwxr-xr-x 4,078 gffGetmRNA.pl
- - rwxr-xr-x 3,113 gp2othergp.pl
- - rwxr-xr-x 7,023 gtf2aa.pl
- - rwxr-xr-x 9,919 gtf2bed.pl
- - rwxr-xr-x 15,596 gtf2gff.pl
- - rwxr-xr-x 2,837 gth2gtf.pl
- - rwxr-xr-x 12,927 hal2maf_split.pl
- - rwxr-xr-x 1,431 joinPeptides.pl
- - rwxr-xr-x 9,063 join_aug_pred.pl
- - rwxr-xr-x 2,669 join_mult_hints.pl
- - rwxr-xr-x 3,473 maf2conswig.pl
- - rwxr-xr-x 472 makeMatchLists.pl
- - rwxr-xr-x 16,753 makeUtrTrainingSet.pl
- - rwxr-xr-x 1,662 maskNregions.pl
- - rwxr-xr-x 1,705 merge_masking.pl
- - rwxr-xr-x 2,494 moveParameters.pl
- - rwxr-xr-x 20,708 msa2prfl.pl
- - rwxr-xr-x 7,724 new_species.pl
- - rwxr-xr-x 7,096 opt_init_and_term_probs.pl
- - rwxr-xr-x 85,362 optimize_augustus.pl
- - rwxr-xr-x 3,610 parseSim4Output.pl
- - rwxr-xr-x 17,136 partition_gtf2gb.pl
- - rwxr-xr-x 2,111 pasapolyA2hints.pl
- - rwxr-xr-x 3,373 peptides2alternatives.pl
- - rwxr-xr-x 6,796 peptides2hints.pl
- - rwxr-xr-x 2,765 phastconsDB2hints.pl
- - rwxr-xr-x 2,334 polyA2hints.pl
- - rwxr-xr-x 10,586 prints2prfl.pl
- - rwxr-xr-x 8,036 pslMap.pl
- - rwxr-xr-x 1,975 randomSplit.pl
- - rwxr-xr-x 1,950 retroDB2hints.pl
- - rwxr-xr-x 1,407 rmRedundantHints.pl
- - rwxr-xr-x 727 runAllSim4.pl
- - rwxr-xr-x 4,996 samMap.pl
- - rwxr-xr-x 1,163 scipiogff2gff.pl
- - rwxr-xr-x 2,225 setStopCodonFreqs.pl
- - rwxr-xr-x 1,219 simpleFastaHeaders.pl
- - rwxr-xr-x 2,610 simplifyFastaHeaders.pl
- - rwxr-xr-x 2,103 splitMfasta.pl
- - rwxr-xr-x 865 split_wiggle.pl
- - rwxr-xr-x 2,162 summarizeACGTcontent.pl
- - rwxr-xr-x 19,257 transMap2hints.pl
- - rwxr-xr-x 1,969 uniquePeptides.pl
- - rwxr-xr-x 2,399 utrgff2gbrowse.pl
- - rwxr-xr-x 1,606 weedMaf.pl
- - rwxr-xr-x 5,378 wig2hints.pl
- - rwxr-xr-x 2,885 wigchoose.pl
- - rwxr-xr-x 14,141 writeResultsPage.pl
- - rwxr-xr-x 10,065 yaml2gff.1.4.pl