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• Tracker artifact added

  Anonymous created the minor problem with ms output artifact

  posted by nobody 29 days ago

• Tracker artifact added

  Anonymous created the minor problem with ms output artifact

  posted by nobody 29 days ago

• Update

  Updates: See documentation for details, but here is a brief description. * SFS_CODE now supports various equilibrium nucleotide frequencies using the --b aseFreq (-q) flag (which can be set to change ...

  posted by ryan_hernandez 132 days ago

• File released: /sfscode/sfscode_20090828/sfscode_20090828.tgz

  posted 132 days ago

• optimization update

  I have made minor updates to SFS_CODE, but they have come at the benefit of a considerable decrease in computation time. As an example, the previous version took about 36 seconds to simulation 1MB in a population of size N=250. The current version takes about 24. For N=500, it took 90s, now it takes 61s. I will update the table andfigures on the performance tab of the webpage when I have time to run all those simulations. Happy Simulating!

  posted by ryan_hernandez 239 days ago

• File released: /sfscode/sfscode_20090513/sfscode_20090513.tgz

  posted 239 days ago

• sfscode sfscode_20090513 file released: sfscode_20090513.tgz

  posted 239 days ago

• File released: /sfscode/sfscode_20090223/sfscode_20090223.tgz

  posted 318 days ago

• sfscode sfscode_20090223 file released: sfscode_20090223.tgz

  posted 318 days ago

• Biased Gene Conversion

  SFS_CODE has been updated to allow for gene conversion (with the option of being GC-biased). This involved quite an overhaul of the way recombination is simulated. Ive gone ahead and compared SFS_CODE to ms again, and everything that was on the Comparisons and Expectations tab still checks out. I added an additional description regarding the comparison of the two programs with gene conversion (and the parameter conversion that you have to do to get them to match) in the documentation. I dont know of any other programs that simulate biased gene conversion, so I cant do any standard comparisons, just my own semi-rigorous bug checking. Ive also slightly changed the way the recombination map file is input. You now do not have to include the rate in the file, instead you just enter the population scaled recombination rate per site as usual after specifying the the file (e.g., -r F <file> <>). Happy simulating!

  posted by ryan_hernandez 322 days ago