This is a test version of Biostars. For the public version, visit https://www.biostars.org.
convert Rate(cM/Mb) to probability

Greetings,

I have genetic maps for all the chromosomes as follow: 

Chromosome  Position(bp)    Rate(cM/Mb) Map(cM)

chr1    55550   2.981822    0.000000

chr1    82571   2.082414    0.080572

chr1    88169   2.081358    0.092229

...

And I want to convert Rate(cM/Mb) to a probability value (the recombination probability), does anyone have an idea about how to do that?

Thanks,

snp recombination probability rate(cm/mb) hotspots
• 5,828 views • link
written by katkota.a • katkota.a

Probability of what exactly? Recombination?

• 1 views • link
written by Devon Ryan Devon Ryan

Yes exactly I mean the recombination probability

• 1 views • link
written by katkota.a • katkota.a

I expect you can figure this out yourself if you look up what a centimorgan is.

• 1 views • link
written by Devon Ryan Devon Ryan

I have tried but I could not be able to understand. I'm CS student and this is the first time for me working on bioinformatic related work.

• 1 views • link
written by katkota.a • katkota.a

This is straight biology, it has nothing to do with bioinformatics. I will not give you the answer to this, but I will help direct you to finding it.

Let's start with, "what is the definition of a centimorgan"?

• 1 views • link
written by Devon Ryan Devon Ryan

Yeah I know, but I mean the whole project in bioinformatics, and what I want to do is a very small part of my project, which is as you said related to biology.

Thanks a lot! :) centimorgan, as I know, is just a small unit that we can be used to express the distance between two gene loci on a chromosome. right?

• 1 views • link
written by katkota.a • katkota.a

Partly right (or completely wrong, depending on how rigorous one is). What you said is the use of centiMorgan, not its definition.

What is the definition of centiMorgan? It is a sentence that goes like this: "It is defined as the distance between chromosome positions..."

• 1 views • link
written by h.mon h.mon

I see. You are very precise! Thanks.

• 1 views • link
written by katkota.a • katkota.a

Precision is very important here, since once you know what a centimorgan is you'll probably know the answer to your question.

• 1 views • link
written by Devon Ryan Devon Ryan

Sounds correct at least

• 1 views • link
written by Devon Ryan Devon Ryan

1 answer

Here is the answer to my question :)

I need to take last column "Map(cM)" and by using the last formula in https://en.wikipedia.org/wiki/Centimorgan I can convert it to recombination probability.

• 1 views • link
written by katkota.a • katkota.a

Log in to answer this question.

More posts like this