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Index of /EvidentialGene/evigene/scripts/rnaseq

      Name                         Last modified       Size  Description

[DIR] Parent Directory 14-Feb-2014 13:36 - [   ] velv-subset2.sh 06-Feb-2011 14:55 1k [   ] velv-gg-subset.sh 15-Aug-2011 14:22 2k [   ] veltrmake.sh 02-Mar-2013 12:44 1k [   ] velsubt.sh 13-Aug-2011 16:09 1k [TXT] velsubsetfa.pl 17-Feb-2011 11:49 1k [   ] velrun9gsd.sh 12-Apr-2012 22:17 5k [   ] velrun8sd.sh 12-Apr-2012 13:24 3k [   ] velrun7sd.sh 11-Apr-2012 01:03 3k [   ] velrun6sd.sh 12-Apr-2012 21:57 3k [   ] velrun4gsd.sh 15-Apr-2012 15:21 6k [   ] velrun12a.sh 22-Oct-2012 18:49 3k [   ] velreoases.sh 14-Aug-2011 16:23 1k [   ] velprepseq.sh 21-Apr-2012 15:00 5k [   ] velmerge.sh 13-Apr-2012 12:45 2k [TXT] velmakesubperf.pl 26-Mar-2011 16:28 2k [TXT] velfq2fa.pl 15-Apr-2012 22:18 1k [   ] vel-subsmall.sh 15-Aug-2011 00:11 1k [   ] vel-submid.sh 15-Aug-2011 00:10 1k [   ] vel-subbig.sh 15-Aug-2011 00:04 1k [TXT] veccutmrna2.pl 21-May-2013 21:40 59k [TXT] veccutmrna.pl 15-May-2013 14:33 40k [   ] trsplitrefix9d_sd.sh 07-Aug-2012 12:47 3k [   ] trsplitfix9_sd.sh 03-Aug-2012 21:16 2k [   ] trgsnap.sh 20-May-2011 20:59 1k [TXT] trformat.pl 24-Jun-2013 12:57 12k [   ] treasm.sh 05-Apr-2013 11:18 5k [   ] trbamstats.sh 21-May-2011 14:30 1k [TXT] trasmstrandspan.pl 06-Jan-2013 16:08 47k [   ] trasmspan_kfish2sd2.sh 06-Jan-2013 14:51 3k [TXT] trasmfixup.pl 07-Aug-2012 22:37 13k [   ] trasmfix9_sd.sh 03-Aug-2012 19:30 1k [TXT] subsetids.pl 24-Apr-2012 17:17 10k [TXT] strandspanintab.pl 01-Jan-2013 12:50 11k [TXT] sraget.pl 28-Feb-2013 12:13 1k [TXT] splitmainalt.pl 19-Sep-2013 16:21 10k [TXT] splign2gff.pl 18-Aug-2013 02:35 60k [TXT] samtcount.pl 07-Mar-2011 15:44 15k [TXT] samstats.pl 09-Jul-2012 23:51 27k [   ] samstat.sh 22-Nov-2010 17:52 1k [   ] samsort.sh 22-Nov-2010 17:37 1k [TXT] samintrons.pl 02-Jul-2012 19:10 7k [TXT] samfiltergff.pl 16-Mar-2011 14:42 14k [   ] samcuff.sh 12-Oct-2010 15:30 1k [   ] samcounttab.sh 03-Dec-2010 19:06 1k [   ] samcount2genetab.sh 06-Dec-2010 17:09 1k [TXT] samcount.pl 15-Mar-2011 23:20 12k [   ] samcomb.sh 11-Oct-2010 22:47 1k [TXT] sam2velv.pl 10-Jun-2011 11:45 28k [TXT] sam2seqparts.pl 04-Jan-2011 12:40 37k [   ] sam2intron.sh 26-Jan-2011 18:05 1k [   ] sam2bam.sh 18-Nov-2010 04:43 1k [TXT] rxpastecounts.pl 29-Mar-2013 17:38 6k [   ] runvelv_kfishrna1.sh 08-Jul-2013 18:16 1k [   ] runsoaptr_cacao3cg.sh 20-Jun-2012 21:12 2k [   ] runsoap_kfishrna1.sh 08-Jul-2013 18:17 2k [TXT] runsoap_eg.libs 11-Jan-2013 23:55 1k [   ] runsoap.sh 11-Jan-2013 23:54 1k [   ] runcuff2.sh 05-Sep-2010 20:41 1k [   ] rrnafilter.sh 24-Jan-2011 23:09 1k [   ] rpartfix2renam.sh 28-Dec-2010 21:39 1k [   ] rnavelv.sh 27-Dec-2010 20:17 1k [   ] rnavelpart.sh 28-Dec-2010 22:03 2k [   ] rnagsnap2.sh 06-Oct-2010 00:56 1k [   ] rnagsnap11.sh 13-Aug-2011 12:52 1k [   ] rnagsnap1.sh 06-Oct-2010 00:11 1k [   ] rnagff2btab.sh 21-Jun-2011 15:12 1k [   ] rnacuff.sh 06-Oct-2010 18:55 1k [TXT] pullspanstrandsam.pl 18-Jul-2012 12:52 9k [   ] processtr.sh 03-Mar-2013 12:20 4k [TXT] makevelsubs.pl 12-Aug-2011 20:47 2k [   ] maketrtrin.sh 18-Jan-2013 20:45 1k [   ] maketrsoap.sh 10-Jun-2012 21:36 1k [   ] maketraa_iumason.sh 09-Jan-2013 13:04 4k [   ] maketraa3.sh 04-Feb-2013 13:04 4k [   ] maketraa2.sh 24-Oct-2012 15:50 10k [   ] maketraa.sh 04-Feb-2013 13:04 4k [   ] makesamfa1.sh 17-Oct-2010 20:18 1k [   ] makeparts.sh 30-Dec-2010 15:34 1k [   ] makenomap.sh 12-Feb-2011 20:59 1k [   ] makemapfa.sh 10-Feb-2011 12:10 1k [   ] makegsnap.sh 05-Sep-2010 17:10 1k [   ] makefa2.sh 05-Oct-2010 19:44 1k [   ] makefa1.sh 03-Sep-2010 17:56 1k [   ] makecleans.sh 12-Feb-2011 21:40 1k [TXT] makecleans.pl 22-Feb-2011 18:57 2k [   ] make_rasm_incutpro.sh 21-Aug-2011 22:30 1k [TXT] locussametab.pl 21-Sep-2013 17:18 4k [TXT] locussamediff2pubid.pl 27-Sep-2013 12:58 9k [   ] gsnaptrmap.sh 12-May-2012 14:54 6k [   ] gsnapset.sh.mason 27-Aug-2011 15:40 3k [   ] gsnapbam.sh 13-Aug-2011 12:51 2k [TXT] gmapgffclean.pl 23-Mar-2011 19:08 1k [   ] gg-velrun.sh 29-Dec-2010 21:10 1k [   ] gg-velcall.sh 29-Dec-2010 21:10 1k [   ] gg-rnavel.sh 29-Dec-2010 12:15 1k [   ] gg-cuffrun.sh 02-Jan-2011 21:05 1k [   ] gff2bw.sh 29-Aug-2011 22:50 1k [   ] genosplign.sh 21-Jul-2013 13:48 8k [TXT] fqsrasplit.pl 07-Jun-2012 17:07 1k [   ] fqpaste.sh 11-Aug-2011 21:09 1k [   ] fq2pairsr.sh 16-Jul-2013 18:14 2k [TXT] fq2fa.pl 10-Jun-2012 12:30 1k [TXT] fasample.pl 11-Jun-2012 11:35 3k [TXT] fa2pairfa.pl 11-Feb-2013 20:24 4k [   ] evaltrx.sh 17-Apr-2012 12:34 8k [TXT] edger_pair.R 03-Apr-2013 14:29 3k [   ] cuffdiff.sh 24-Nov-2010 08:25 1k [TXT] cuffaa2cds.pl 16-May-2012 14:04 2k [   ] cuff2gff.sh 28-Dec-2012 13:44 2k [   ] bowtietrmap.sh 13-May-2012 13:36 13k [   ] bow2trmapc.sh 17-Jun-2012 19:02 2k [   ] bamstats.sh 17-Dec-2010 19:00 1k [   ] bamrcount.sh 03-Jan-2011 18:30 1k [   ] bampull.sh 25-Dec-2010 16:20 1k [   ] bamintrons.sh 20-Nov-2012 15:41 1k [   ] bamindx.sh 13-Aug-2011 17:17 1k [   ] bamcuff1.sh 16-Dec-2010 15:53 1k [   ] bamcuff.sh 14-Aug-2011 12:17 1k [   ] bam2strandv2.sh 01-Jan-2013 15:17 5k [   ] bam2strandimp.sh 29-Dec-2012 12:09 4k [   ] bam2strandfix.sh 13-Jul-2012 20:54 3k [   ] bam2stranded.sh 13-Jul-2012 20:51 4k [   ] bam2intron.sh 11-Jun-2011 12:44 1k [   ] bam2bw.sh 29-Aug-2011 23:41 1k [TXT] bam2bw.pl 18-Sep-2012 14:59 4k [   ] bam2bed.sh 11-Jul-2012 20:13 1k [TXT] asmrna_trimvec.pl 07-Jun-2013 22:39 65k [TXT] asmrna_equalgenes.pl 09-Nov-2012 14:10 20k [TXT] asmrna_dupfilter2sep13sav.pl 03-Sep-2013 12:49 85k [TXT] asmrna_dupfilter2.pl 16-Sep-2013 13:22 89k [TXT] asmrna_dupfilter.pl 13-Feb-2013 11:21 30k [   ] asmrna_dupfil2run.sh 20-Feb-2013 13:52 2k [TXT] asmrna_altreclass.pl 25-Aug-2013 15:07 27k [TXT] asmrna2refjoins.pl 22-Dec-2012 17:23 6k [TXT] asmrna2refalign_stats.pl 19-Dec-2012 20:25 4k [   ] asmrna2refalign.sh 17-Dec-2012 16:48 5k [TXT] asmrna2ncbitsa.pl 05-Mar-2013 12:39 23k


Developed at the Genome Informatics Lab of Indiana University Biology Department