Question: Obtaining Go Term Probabilities
0
gravatar for Venky
6.6 years ago by
Venky10
Venky10 wrote:

Hey All,

I need to get convert the following:

xxx2233 GO:0000166      ubc8 (ubiquitin conjugating enzyme 8) protein binding ubiquitin-protein ligase
xxx2234 GO:0005525      nrpb6a dna binding dna-directed rna polymerase
xxx2235 GO:0007264      nrpb6a dna binding dna-directed rna polymerase

to the following:

xxx2233 0.564738        GO:0000166      ubc8 (ubiquitin conjugating enzyme 8) protein binding ubiquitin-protein ligase
xxx2234 0.456987        GO:0005525      nrpb6a dna binding dna-directed rna polymerase
xxx2235 0.192837        GO:0007264      nrpb6a dna binding dna-directed rna polymerase

Essentially, i need to obtain the probability of occurrence of a GO term for every gene in the result

Is anyone aware of any script or a tool to obtain these probabilities provided the input file mentioned above?

Thanks,

annotation • 1.3k views
ADD COMMENTlink modified 6.5 years ago by NetunoPoncã160 • written 6.6 years ago by Venky10

It isn't clear what "probability" you want to find. Can you supply an example or at least give us the numbers you would use to calculate your result?

ADD REPLYlink written 6.6 years ago by Sean Davis26k

I'm also a little unclear as to what you want. Do you just want the percentage of genes that have each GO term you specify or maybe the percentages for all GO terms? Also, what species are you working with?

ADD REPLYlink modified 6.6 years ago • written 6.6 years ago by Jason900
0
gravatar for NetunoPoncã
6.5 years ago by
NetunoPoncã160
Brazil
NetunoPoncã160 wrote:

If you are talking about a list of GO terms, can't you use a tool like GO Stat?

http://gostat.wehi.edu.au/cgi-bin/goStat.pl

ADD COMMENTlink written 6.5 years ago by NetunoPoncã160
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