On Thu, Apr 14, 2011 at 5:13 PM, Brad Chapman <chapm...@50mail.com> wrote: > Peter and Guru; > > [Computing GC] > >> I'll be working with simple sequence files (FASTA, or even FASTQ, >> SFF, etc) rather than BED files, but I'll keep that in mind. > > Emboss has some utilities that do this. infoseq and geecee, and > there are also programs for exploring CpG islands: > > http://emboss.sourceforge.net/apps/release/6.3/emboss/apps/nucleic_cpg_islands_group.html > > Brad >
Good idea Brad :) Now why does a tool search on the public Galaxy instance for GC not suggest this tool? Name: geecee Description: Calculates fractional GC content of nucleic acid sequences Does this mean the description isn't searched? It would seem like a sensible idea to me to include that... Searching for "geecee" works, but unless you're familiar with this EMBOSS tool no-one will think of that. Peter ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
