Dear all

Many thanks to all that replied to my request for a simulation software
for genetic data.

Many people asked to have a copy of the answers. Below there is my
original question and all the replies.

Thank you again to all.

My question:

I'm looking for a simulation software for genetic data that allows:

- input genotpypic data
- perform random mating simulation for several generations

Easypop doesn't allow to input data file.
I'm greateful to all for any help.

REPLIES:

Hi Daniele,

You could try Nemo. A friend of mine built it and I have been using it
extensively. There is functionality built into Nemo to read from an input
file and to perform random mating simulations, but I am not sure how easy
it is to construct an input file from scratch with your own data. I've
copied Fred's email here, as he programmed it originally, so you might ask
him.

Good luck!
Sam

http://nemo2.sourceforge.net/
http://sourceforge.net/projects/nemo2/

Hi Daniele,

it sounds like BOTTLESIM could be what you are looking for. It
does however not model migration or mutation, only drift:
http://chkuo.name/software/BottleSim.html

Cheers,
Frank

Dear Daniele,

The software HybridLab from Nielsen can do this and uses a genepop input
file. Although initially devloped for hybridisation simulations, when
using twice the same population, it creates random mating within this
population. It is however not automated to run for several generations,
requiring a script or manual uploading of the result file as input for
every generation.

If would be happy to get the other responses you get on this topic.

buona fortuna !

ciao

Greg

references:

http://www.dfu.min.dk/ffi/uk/populationgenetic/hybridlab/

http://www.blackwell-synergy.com/doi/pdf/10.1111/j.1471-8286.2006.01433.x?cookieSet=1

Hi,

Have you tried simuPOP (by Peng) or FPG. I have never used
them, so Im not sure they can do what you ask.

Peng and Kimmel 2005. simuPOP: a forward-time population genetics simulation environment
BIOINFORMATICS APPLICATIONS NOTE 21(18), pages 3686-3687

Good luck

Miguel Navascués

FPG
http://lifesci.rutgers.edu/~heylab/HeylabSoftware.htm#FPG

Dear Daniele.
Regarding your question at EvolDir:
HYBRIDLAB might do the trick, except I'm not sure that it automatically can simulate over several generation. You may have to do a
separate run for each generation and then use the output file from the previous simulated generation. Anyway, I've attached two
references, so you can check them out
 Good luck
Morten Allentoft

Finally,  I add to the list ManagedPop (Written by Kenneth Birnbaum, Charles M. Peters, Philip N. Benfey, and Rob DeSalle).
It is a drift simulation that projects loss of allelic diversity in populations with overlapping generations that receive an input
of progeny from a small (in terms of genetic identity) second population.

Daniele.Porretta@uniroma1.it