Hi, one solution for just the longest ORF would be:
getorf sequence.fa | sizeseq -filter -desc | seqret -filter -first David. -----Ursprüngliche Nachricht----- Von: emboss-boun...@lists.open-bio.org [mailto:emboss-boun...@lists.open-bio.org] Im Auftrag von Chevreux, Bastien Gesendet: 04 June 2013 10:29 An: emb...@emboss.open-bio.org Betreff: [EMBOSS] getorf: propose new switch '-longest' Hi there, in case someone goes over 'getorf' for a next revision: I propose to add a switch like '-longest' to retrieve the longest potential ORF per sequence. Maybe also something like '-grace PERCENT' which - in combination with '-longest' - would retrieve the longest ORF and all ORFs which are up to PERCENT smaller than the longest one. Best, Bastien -- DSM Nutritional Products | NIC-RD / HNH Bioinformatics Bldg. 203.4/188 | P.O. Box 2676 | 4002 Basel | Switzerland T +41 61 815 8264 ________________________________ DISCLAIMER: This e-mail is for the intended recipient only. If you have received it by mistake please let us know by reply and then delete it from your system; access, disclosure, copying, distribution or reliance on any of it by anyone else is prohibited. If you as intended recipient have received this e-mail incorrectly, please notify the sender (via e-mail) immediately. _______________________________________________ EMBOSS mailing list EMBOSS@lists.open-bio.org http://lists.open-bio.org/mailman/listinfo/emboss _______________________________________________ EMBOSS mailing list EMBOSS@lists.open-bio.org http://lists.open-bio.org/mailman/listinfo/emboss
