Entering edit mode
5.5 years ago
jamie_cooper2341
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0
I've found the longest open reading frame via https://www.ncbi.nlm.nih.gov/orffinder/ and therefore the amino acid sequence of the protein encoded by blasting the longest ORF.
The next step in my sequence analysis report I want to detect predicted genes, I've seen somewhere online to use GLIMMER, but I can't install it on the university computers.
Is there additional bioinformatics tools I could use? In order to detect predicted genes on my DNA base sequence?
Please don't start splitting questions from your assignment out. We will most likely close this question and refer back to the original you had posted earlier today: Need Bioinformatics Help - Analyzing Unknown Dna Sequence
It's a question, involving the use of a bioinformatic tool I'm not familiar with, how is this remotely going against any code of conduct.
Can tell you was fun at parties! Mr Biostars Police.
We do not tolerate personal attacks like this. Biostars moderators are volunteers who try to help to keep this forum as efficient and friendly as possible. You may disagree with what we write, but do so respectfully. Leashing out like this is not going to help you get any help from frequent contributors. I'd definitely party with genomax, though.
If you have found the longest ORF do you need to run GLIMMER? Your instructors must be aware that you need to use accessible web based tools and can't install new software on institutional computers. Your original assignment question only talks about the longest ORF.
@Jamie,
While I do want to thank you for taking my previous advice of asking more targeted/specific question about aspects of the project you have, it would be better to just have edited your previous question, to keep everything together and in context.
Genomax is right to flag this up for closing and we moderators have been discussing it away from the forum. Please don't feel discouraged by this, rather just continue to ask the focussed questions in one place.
(Also, you needn't keep putting "need bioinformatics help" in your titles - why else would you be on a bioinformatics forum? :P )
My heads all over the place to be honest with you mate, I've knocked the GLIMMER on the head and now i'm trying to identify potential motifs from my sequence with yet no prevail so you can sort of comprehend my headache.
Yep, I remember the feeling from my undergraduate days. It is bewildering when you start out, but you just chip away at it - keep playing with the tools and breaking them in different ways!
I personally found it useful to keep the biology front and center in your mind (presuming that's your background). You might not understand the outputs of a particular tool, but if, for example, you get a gene prediction thats a few 10s of amino acids long, you probably know its wrong biologically.