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Folder: scripts
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- | rw-r--r-- | 9,953,441 | PF00225_full.blocks.txt |
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- | rw-r--r-- | 49,752 | PF00225_seed.blocks.txt |
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- | rw-r--r-- | 12,670 | README.autoAug |
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- | rwxr-xr-x | 12,247 | SplicedAlignment.pm |
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- | rwxr-xr-x | 20,552 | aa2nonred.pl |
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- | rwxr-xr-x | 3,524 | add_name_to_gff3.pl |
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- | rwxr-xr-x | 27,830 | augustify.py |
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- | rwxr-xr-x | 3,022 | augustus2browser.pl |
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- | rwxr-xr-x | 389 | augustus2gbrowse.pl |
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- | rwxr-xr-x | 54,522 | autoAug.pl |
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- | rwxr-xr-x | 23,383 | autoAugPred.pl |
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- | rwxr-xr-x | 45,628 | autoAugTrain.pl |
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- | rwxr-xr-x | 12,830 | bamToWig.py |
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- | rwxr-xr-x | 3,370 | bedgraph2wig.pl |
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- | rwxr-xr-x | 4,724 | blat2gbrowse.pl |
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- | rwxr-xr-x | 32,708 | blat2hints.pl |
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- | rwxr-xr-x | 11,321 | block2prfl.pl |
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- | rwxr-xr-x | 2,233 | cegma2gff.pl |
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- | rwxr-xr-x | 3,843 | checkParamArchive.pl |
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- | rwxr-xr-x | 1,151 | checkUTR |
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- | rwxr-xr-x | 535 | cleanDOSfasta.pl |
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- | rwxr-xr-x | 7,558 | clusterAndSplitGenes.pl |
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- | rwxr-xr-x | 1,653 | compare_masking.pl |
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- | rwxr-xr-x | 2,364 | computeFlankingRegion.pl |
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- | rwxr-xr-x | 7,504 | createAugustusJoblist.pl |
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- | rwxr-xr-x | 3,244 | del_from_prfl.pl |
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- | rwxr-xr-x | 9,675 | evalCGP.pl |
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- | rwxr-xr-x | 13,247 | eval_dualdecomp.pl |
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- | rwxr-xr-x | 3,397 | eval_multi_gtf.pl |
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- | rwxr-xr-x | 28,275 | executeTestCGP.py |
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- | rwxr-xr-x | 3,043 | exonerate2hints.pl |
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- | rwxr-xr-x | 1,301 | exoniphyDb2hints.pl |
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- | rwxr-xr-x | 4,609 | extractAnno.py |
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- | rwxr-xr-x | 507 | extractTranscriptEnds.pl |
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- | rwxr-xr-x | 446 | filter-ppx.pl |
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- | rwxr-xr-x | 850 | filterGenes.pl |
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- | rwxr-xr-x | 1,071 | filterGenesIn.pl |
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- | rwxr-xr-x | 2,911 | filterGenesIn_mRNAname.pl |
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- | rwxr-xr-x | 1,716 | filterGenesOut_mRNAname.pl |
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- | rwxr-xr-x | 1,122 | filterInFrameStopCodons.pl |
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- | rwxr-xr-x | 2,923 | filterMaf.pl |
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- | rwxr-xr-x | 17,619 | filterPSL.pl |
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- | rwxr-xr-x | 4,465 | filterShrimp.pl |
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- | rwxr-xr-x | 2,081 | filterSpliceHints.pl |
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- | rwxr-xr-x | 1,649 | findGffNamesInFasta.pl |
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- | rwxr-xr-x | 4,320 | findRepetitiveProtSeqs.py |
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- | rwxr-xr-x | 39,199 | fix_in_frame_stop_codon_genes.py |
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- | rwxr-xr-x | 3,632 | fix_joingenes_gtf.pl |
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- | rwxr-xr-x | 3,098 | gbSmallDNA2gff.pl |
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- | rwxr-xr-x | 8,078 | gbrowse.conf |
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- | rwxr-xr-x | 3,769 | gbrowseold2gff3.pl |
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- | rwxr-xr-x | 7,642 | getAnnoFasta.pl |
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- | rwxr-xr-x | 11,651 | getAnnoFastaFromJoingenes.py |
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- | rwxr-xr-x | 2,038 | getLinesMatching.pl |
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- | rwxr-xr-x | 2,138 | get_loci_from_gb.pl |
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- | rwxr-xr-x | 19,301 | gff2gbSmallDNA.pl |
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- | rwxr-xr-x | 1,758 | gff2ps_mycustom |
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- | rwxr-xr-x | 4,074 | gffGetmRNA.pl |
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- | rwxr-xr-x | 3,109 | gp2othergp.pl |
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- | rwxr-xr-x | 7,019 | gtf2aa.pl |
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- | rwxr-xr-x | 9,915 | gtf2bed.pl |
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- | rwxr-xr-x | 15,592 | gtf2gff.pl |
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- | rwxr-xr-x | 2,833 | gth2gtf.pl |
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- | rwxr-xr-x | 12,923 | hal2maf_split.pl |
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- | rw-r--r-- | 9,809 | helpMod.pm |
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- | rwxr-xr-x | 1,427 | joinPeptides.pl |
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- | rwxr-xr-x | 9,059 | join_aug_pred.pl |
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- | rwxr-xr-x | 2,665 | join_mult_hints.pl |
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- | rwxr-xr-x | 3,469 | maf2conswig.pl |
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- | rwxr-xr-x | 468 | makeMatchLists.pl |
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- | rwxr-xr-x | 16,749 | makeUtrTrainingSet.pl |
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- | rwxr-xr-x | 1,658 | maskNregions.pl |
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- | rwxr-xr-x | 1,701 | merge_masking.pl |
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- | rwxr-xr-x | 2,490 | moveParameters.pl |
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- | rwxr-xr-x | 20,704 | msa2prfl.pl |
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- | rwxr-xr-x | 7,720 | new_species.pl |
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- | rwxr-xr-x | 7,092 | opt_init_and_term_probs.pl |
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- | rwxr-xr-x | 85,358 | optimize_augustus.pl |
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- | rwxr-xr-x | 3,606 | parseSim4Output.pl |
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- | rwxr-xr-x | 17,132 | partition_gtf2gb.pl |
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- | rwxr-xr-x | 2,108 | pasapolyA2hints.pl |
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- | rwxr-xr-x | 3,369 | peptides2alternatives.pl |
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- | rwxr-xr-x | 6,792 | peptides2hints.pl |
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- | rwxr-xr-x | 2,761 | phastconsDB2hints.pl |
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- | rwxr-xr-x | 2,330 | polyA2hints.pl |
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- | rwxr-xr-x | 10,582 | prints2prfl.pl |
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- | rwxr-xr-x | 8,032 | pslMap.pl |
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- | rwxr-xr-x | 1,971 | randomSplit.pl |
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- | rwxr-xr-x | 1,904 | rename_species.pl |
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- | rwxr-xr-x | 1,946 | retroDB2hints.pl |
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- | rwxr-xr-x | 1,403 | rmRedundantHints.pl |
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- | rwxr-xr-x | 723 | runAllSim4.pl |
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- | rwxr-xr-x | 4,992 | samMap.pl |
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- | rwxr-xr-x | 1,159 | scipiogff2gff.pl |
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- | rwxr-xr-x | 2,221 | setStopCodonFreqs.pl |
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- | rwxr-xr-x | 1,215 | simpleFastaHeaders.pl |
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- | rwxr-xr-x | 2,606 | simplifyFastaHeaders.pl |
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- | rwxr-xr-x | 2,099 | splitMfasta.pl |
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- | rwxr-xr-x | 861 | split_wiggle.pl |
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- | rwxr-xr-x | 5,901 | stringtie2fa.py |
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- | rwxr-xr-x | 2,158 | summarizeACGTcontent.pl |
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- | rwxr-xr-x | 19,253 | transMap2hints.pl |
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- | rwxr-xr-x | 1,965 | uniquePeptides.pl |
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- | rwxr-xr-x | 2,395 | utrgff2gbrowse.pl |
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- | rw-r--r-- | 6,352 | webserver-results.head |
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- | rw-r--r-- | 1,033 | webserver-results.tail |
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- | rwxr-xr-x | 1,602 | weedMaf.pl |
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- | rwxr-xr-x | 5,374 | wig2hints.pl |
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- | rwxr-xr-x | 2,881 | wigchoose.pl |
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- | rwxr-xr-x | 14,137 | writeResultsPage.pl |
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- | rwxr-xr-x | 10,061 | yaml2gff.1.4.pl |