CoNe Software


CoNe computes the likelihood of Ne given data on two temporally spaced genetic samples. The statistical model used is based on the coalescent of the gene copies drawn in the second sample, as described in Berthier et al. (Genetics 2003, 160:741-51). The Monte Carlo computations to compute the likelihood, however, were developed by Eric Anderson, and are orders of magnitude faster than previous implementations.


Download files include the source code, documentation, example files, and binaries for both Mac OS X and Windows.

Current version: 1.01

See version history

Download past versions


The software accompanies the following journal article:

Anderson, E. C.
2005. An efficient Monte Carlo method for estimating Ne from temporally spaced samples using a coalescent-based likelihood. Genetics 170(2):955-967.
[view online The previous link is a link to Non-Federal government web site. Click to review NOAA Fisheries disclaimer ]


Software registration is optional. However, we like to know who is using it and for what purpose so that we may develop our software in a manner that is useful to you. Your information will not be distributed to anyone else.

To register, send an email to Eric Anderson with the following information:

  • name
  • email address
  • affiliation
  • how you plan to use the program

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Last modified: 12/24/2014