Veronica, The ".new" extension is just the name it gave to the newly created file. It has no meaning in itself and it is intended that you re-name the newly created file to whatever you wish. That being said, most database search tools don't care what the name of your fasta file is, whether it has a ".new" extension or any other random extension.
- Jimmy On Thu, Oct 30, 2014 at 8:31 AM, Veronica Mutchler < mutchlerveron...@gmail.com> wrote: > It worked!!!! Thank you, Jimmy. What is a .new file type? I've never > heard of that before. Will it be recognized by the data base search > function? > > Veronica > > On Friday, October 24, 2014 4:27:44 PM UTC-4, Jimmy Eng wrote: >> >> The binary is included with the TPP distribution but I don't believe that >> you can access it in the TPP's web interface. So you're going to have to >> run it in a command prompt. Here's an example set of instructions that'll >> hopefully work for you: >> >> 1. Create a directory named c:\translate >> >> 2. Put your transcript database in that directory. It needs to be in >> the fasta format. >> >> 3. Copy the program to this c:\translate directory. You'll find the >> program at c:\inetpub\tpp-bin\translateDNA2AA-FASTA.exe. Rename it to >> simply "translate.exe" to make things easy. >> >> 4. Bring up a command prompt: Start Menu -> All Programs -> Accessories >> -> Command Prompt >> >> 5. type "cd c:\translate" to go into the directory you created >> >> 6. assuming your transcript database is named "mydb.fasta", run the >> program by typing "translate.exe mydb.fasta". >> >> If it runs correctly, it will create a new file with a ".new" extension. >> In the example above, the file will be named "mydb.fasta.new" which will >> contain a 6 frame translation of your transcripts. >> >> Good luck and feel free to follow-up with any questions/problems. >> >> - Jimmy >> >> >> On Fri, Oct 24, 2014 at 11:09 AM, <veronica....@zoetis.com> wrote: >> >>> I need to translate a transcriptome into a proteome. I see in the 4.7.1 >>> release notes that the function is added, but I can't find it anywhere >>> inside TPP. >>> >>> -- >>> You received this message because you are subscribed to the Google >>> Groups "spctools-discuss" group. >>> To unsubscribe from this group and stop receiving emails from it, send >>> an email to spctools-discu...@googlegroups.com. >>> To post to this group, send email to spctools...@googlegroups.com. >>> Visit this group at http://groups.google.com/group/spctools-discuss. >>> For more options, visit https://groups.google.com/d/optout. >>> >> >> -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to spctools-discuss+unsubscr...@googlegroups.com. > To post to this group, send email to spctools-discuss@googlegroups.com. > Visit this group at http://groups.google.com/group/spctools-discuss. > For more options, visit https://groups.google.com/d/optout. > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to spctools-discuss+unsubscr...@googlegroups.com. To post to this group, send email to spctools-discuss@googlegroups.com. Visit this group at http://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
