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Index of /EvidentialGene/evigene/scripts

      Name                             Last modified       Size  Description

[DIR] Parent Directory 14-Feb-2014 13:36 - [TXT] velsubsetfa.pl 17-Feb-2011 11:49 1k [TXT] uniprotfetchbeta.pl 23-Jun-2012 14:14 22k [TXT] uniprot-uniref.info 10-Oct-2011 21:46 2k [TXT] splitMfasta.pl 01-Nov-2009 07:57 2k [TXT] snpcds.pl 29-Dec-2011 12:24 8k [TXT] snp2cds.pl 03-Jan-2012 23:00 13k [   ] rungeneconv.sh 26-Apr-2009 14:15 1k [DIR] rnaseq/ 14-Feb-2014 13:36 - [TXT] recombine_partial_outputs.pl 17-Sep-2011 13:38 8k [TXT] recombine_GFF_partial_outputs.pl 07-Jan-2008 18:55 3k [DIR] prot/ 14-Feb-2014 13:36 - [TXT] process_exonerate_gff3.perl 03-Sep-2011 17:52 20k [TXT] pindel2gff.pl 03-Sep-2012 21:48 2k [TXT] pasa2evigff.pl 19-Aug-2012 21:28 10k [TXT] partition_GFF_qnd.pl 17-Sep-2011 13:24 10k [TXT] partition_GFF_genome.pl 21-Jan-2008 20:03 14k [TXT] partition_GFF_add.pl 02-Jul-2008 15:13 10k [TXT] pa2dgg_gff3proteins.pl 31-Aug-2011 12:03 19k [TXT] overtabulate.pl 23-Mar-2011 10:48 9k [TXT] overlapjoins.pl 23-Jul-2011 17:07 12k [TXT] overlapfilter.perl 16-Sep-2013 21:01 25k [TXT] overlapfilter 16-Sep-2013 21:01 25k [TXT] overlapeval.pl 12-Sep-2009 21:14 22k [TXT] overjoinspan.pl 23-Jul-2011 17:33 24k [TXT] overintron.pl 22-Sep-2011 00:30 18k [TXT] overgenedup.pl 16-Mar-2013 12:17 37k [TXT] overbestgene2.perl 29-Sep-2013 16:37 73k [TXT] overbestgene1a.perl 11-Sep-2011 14:13 21k [TXT] overbestgene1.perl 03-Aug-2012 22:58 42k [TXT] orthomclsum.pl 26-Aug-2012 14:49 9k [DIR] omcl/ 14-Feb-2014 13:36 - [TXT] ncbi_mapview2gff.pl 17-Oct-2009 13:50 6k [TXT] namecleangb.pl 05-Jul-2013 16:56 4k [   ] mustkeepgenes.sh 10-Jul-2011 20:58 8k [TXT] mpile2tiletab.pl 30-Nov-2010 19:17 4k [   ] maketraa2.sh 09-Jun-2012 13:29 6k [   ] makeseqfiles.sh 04-Oct-2010 21:21 1k [   ] makegenescore.sh 22-Feb-2011 13:31 1k [TXT] makeblastscore2.pl 08-Oct-2013 13:17 17k [   ] makeblastscore.sh 29-Sep-2011 14:34 1k [TXT] makeblastscore.pl 15-Oct-2012 23:34 11k [   ] makealt.sh 22-Sep-2013 00:56 3k [TXT] joincheck2.pl 16-Nov-2011 13:26 24k [TXT] joincheck.pl 02-Nov-2011 21:11 20k [TXT] intronscore.pl 16-Aug-2011 13:36 12k [   ] inmatescore.sh 28-Sep-2011 13:53 6k [TXT] inmatescore.pl 16-Aug-2011 14:29 30k [DIR] grid/ 14-Feb-2014 13:36 - [TXT] gmapgffclean.pl 18-Aug-2011 22:02 1k [TXT] gmapgff2btab.pl 05-Nov-2011 13:49 10k [TXT] gmap_to_gff.pl 18-Jul-2013 15:32 32k [TXT] gmap_to_btab.pl 18-Jul-2013 15:32 32k [TXT] gg_job.pl 26-Jun-2008 18:47 15k [TXT] gff2hints.pl 12-Feb-2010 16:24 27k [TXT] gff2ggb.pl 28-Jul-2012 13:53 3k [TXT] gff2bed.pl 07-Sep-2011 23:35 1k [TXT] genomewigdens.pl 08-Oct-2011 14:34 2k [TXT] genomefeatdens.pl 23-Sep-2012 14:05 15k [TXT] geneupdcompare.pl 07-Oct-2011 15:25 25k [TXT] geneuniq.pl 18-Jun-2011 18:05 8k [TXT] genestructab.pl 25-Mar-2012 17:02 24k [TXT] genereplacex.pl 30-Aug-2012 16:19 17k [TXT] genefixgaps.pl 30-Aug-2012 12:55 16k [TXT] genefindcds_prepm.pl 09-Aug-2012 20:04 76k [TXT] genefindcds.pl 19-Aug-2012 13:49 78k [TXT] geneattr.pl 06-Sep-2012 00:31 14k [TXT] fagff2sam.pl 27-Dec-2010 20:07 2k [TXT] exonregion.pl 22-Jun-2011 16:10 16k [TXT] exonrclust.pl 14-Aug-2012 15:37 6k [   ] exonr2gff3.sh 05-Sep-2010 14:27 1k [   ] exonerate-refine.sh 11-Jun-2011 16:53 1k [TXT] evigff2gtf.pl 11-Apr-2011 16:53 1k [TXT] evigene_eval.conf 03-Apr-2011 13:21 4k [TXT] evigene3compare.pl0 04-Aug-2011 20:52 28k [TXT] evigene3compare.pl 07-Aug-2011 12:44 35k [TXT] evigene2genbanktbl.pl 27-Mar-2013 12:34 88k [TXT] evgrna2genbanktsa.pl 21-Jun-2013 13:00 37k [TXT] evgmrna2tsa2sep13sav.pl 05-Sep-2013 15:32 113k [TXT] evgmrna2tsa2.pl 15-Sep-2013 15:12 115k [TXT] evgmrna2tsa1.pl 24-May-2013 13:04 75k [TXT] evgmrna2tsa.pl 15-Sep-2013 15:12 115k [TXT] evgalign2genomeloci_info.txt 27-Sep-2013 12:56 5k [TXT] evaluate_predictions.pl 31-Aug-2013 18:25 56k [TXT] evaltab.pl 05-Oct-2010 12:31 5k [   ] evalpred.sh 18-Oct-2010 16:23 3k [TXT] eval_orthogroup_genesets.pl 08-Oct-2013 16:17 29k [TXT] eval_orthodb_groups.pl 10-Oct-2012 21:27 35k [TXT] estsamcover.pl 17-Jun-2012 19:46 16k [DIR] ests/ 14-Feb-2014 13:36 - [TXT] estblastcover.pl 09-May-2012 16:09 15k [TXT] equalgene.pl 16-Mar-2013 12:17 37k [TXT] efetchncbi.pl 02-Oct-2010 13:56 4k [TXT] efetchests.pl 18-Jul-2012 20:34 4k [   ] cuff2gff.sh 14-Mar-2011 14:18 1k [TXT] countblatalign.pl 14-May-2011 13:11 9k [TXT] cleanmakergff.pl 12-Dec-2012 19:57 11k [TXT] cdsgff2genbank.pl 22-Jun-2012 15:59 32k [TXT] cds2aadiff.pl 08-Sep-2012 23:31 2k [TXT] cdna_proteins.pm 18-Aug-2013 14:17 26k [TXT] cdna_evigenesub.pm 22-Aug-2013 23:34 28k [TXT] cdna_bestorf.pl 21-Aug-2013 12:22 19k [   ] cdhitprot.sh 18-Feb-2012 20:19 1k [DIR] cacao_scripts/ 27-Oct-2011 13:38 - [TXT] blat2hints.pl 01-Nov-2009 07:57 30k [TXT] blat2gff.pl 21-Oct-2007 15:54 8k [TXT] blast92orthomcl10.pl 15-Oct-2012 15:43 21k [TXT] blast92gff3.pl 02-Sep-2011 18:03 36k [   ] bestnotrivial.sh 17-May-2011 11:57 4k [TXT] bestgenes_update.pl 31-Aug-2013 18:26 76k [TXT] bestgenes_puban_wasp.pl 05-Sep-2012 15:50 57k [TXT] bestgenes_puban_kfish.pl 12-Oct-2013 15:37 60k [TXT] bestgenes_puban_cacao.pl 24-Mar-2012 12:08 57k [TXT] bestgenes_puban.pl 06-Jun-2011 13:50 33k [TXT] aug2mapgff.pl 29-Aug-2013 12:43 15k [TXT] asm21align.pl 27-Oct-2011 11:56 29k [TXT] annotate_predictions.pl 07-Sep-2013 21:05 33k [   ] anaugmap.sh 18-Oct-2010 15:17 3k [TXT] altbest.pl 25-Sep-2013 16:32 39k [TXT] agplift2gff.pl 26-May-2010 23:09 16k [TXT] Fasta_reader.pm 30-Mar-2007 11:29 3k


Developed at the Genome Informatics Lab of Indiana University Biology Department