Dear Tim. Hi, Thank you for your answer
and.. I have more questions.. I want to see where reversed matches are and get sequences of there. in main window(loading 2 sequences files, comparison file), I have to move the scroll bar and find where reverse/forward matches are. but if I load a dot-plot file, I can see at a glance, i think.. so I am trying to load the dot plot file. following ACT manual, ACT can read users dot-plot. also, I have a plot file generated MUMmer. when I upload 2 fasta files and comparison file, the menu bars are changed. they have functions for each fasta file I loaded. I have one dot plot file compared two sequence,. 1. where I upload this file? 2. if I upload a dot-plot file generated mummerplot, do I need a parser? (following manual, mummmerplot output is different from users plot format recommended ACT, so I got error message when I upload) 3. if I upload a dot-plot file, can I select a region and get sequences of there? best regards. Sun-young 2010. 6. 28., 오후 4:50, Tim Carver 작성: > Hi > > There are some useful examples on how to parse the output here: > > http://www.mail-archive.com/artemis-users@sanger.ac.uk/msg00487.html > > You can get the selected sequence either by going to the View menu and > clicking the 'Bases of Selection as FASTA', or from the File menu under the > 'Write' option you can write out the bases of selection. > > > Regards > Tim > > On 6/27/10 10:10 AM, "sylee" <209ab...@gmail.com> wrote: > >> Dear Sir/Ma'am >> >> Hi, I am trying to view the comparison files using ACT tool. >> I have been working with MUMmer, and I got the comparison file generated by >> MUMmer (using NUCmer function -> .coords file). >> as I know, ACT can read the output of MUMmer. >> however, when loading the comparison file in ACT, I got error message about >> comparison file format. >> I don't know which files to use.. >> Do I need a parser for my MUMmer output files? >> If so, could you let me know how I can parse them using Python code? >> (I am not a perl person..so if not a complete code, I cannot use them... ) >> and, I have a one more question.. >> using ACT tool, can I get the sequences when I selected a part of comparison >> region? >> >> >> Thank you very much for your time, >> >> >> >> Sincerely from Sun-Young Lee >> >> >> ----------------------------------------------------- >> Sun-Young Lee >> >> Laboratory of Genomics & Genomic Medicine >> Lee Gil Ya Cancer and Diabetes Institute >> Gachon University of Medicine and Science >> >> Tel : +82 32 899 6545 >> Fax : +82 32 899 6519 >> Mobile : +82 19 278 0920 >> e-mail: sy...@gachon.ac.kr; 209ab...@gmail.com >> ----------------------------------------------------- >> >> >> _______________________________________________ >> Artemis-users mailing list >> Artemis-users@sanger.ac.uk >> http://lists.sanger.ac.uk/mailman/listinfo/artemis-users > > > > > -- > The Wellcome Trust Sanger Institute is operated by Genome Research > Limited, a charity registered in England with number 1021457 and a > company registered in England with number 2742969, whose registered > office is 215 Euston Road, London, NW1 2BE. _______________________________________________ Artemis-users mailing list Artemis-users@sanger.ac.uk http://lists.sanger.ac.uk/mailman/listinfo/artemis-users
