-- %TEACHINGWEB%.JacobVogan - 24 Nov 2011
Homework #8a - Bayesian Analysis of DNA sequence Origin
ORFprob.pl Features:
Examples:
Computation:
Background on sequence origin probabilities P(G=0) and P(G=1) can be found here.
This program first computes the posterior probability P(G=0|S) from the probability P(S|G=0). The prior probability P(S|G=0) is computed using the probability P(G=0) would not generate a STOP codon for the given sequence codon-length and reading frame (this also depends on P(x=T), P(x=A), and P(x=G)). From this, P(G=0|s) is computed by:
The posterior probability P(G=1|S) is then:
For test.fasta file with sequences:
I | Attachment | Action | Size | Date | Who | Comment |
---|---|---|---|---|---|---|
txt | ORFprob.pl.txt | manage | 7.0 K | 2011-11-30 - 02:04 | JacobVogan | ORF Bayesian Perl script - outputs posterior probability on sequence origin |