Archive for regression random forest

PCI Math Comp Biol gets live!

Posted in Books, Statistics, University life with tags , , , , , on March 5, 2020 by xi'an

A new Peer Community (PCI) preprint and postprint server is about to get live, with Mathematical & Computational Biology as its core interest. Thanks to the efforts of Amaury Lambert, Céline Scornavacca, and Eric Tannier. Following the earlier PCI Evol Biol (and my aborted attempt to start a PCI Comput Stats…). Although the funding and the core team are mostly French, the target is obviously international and editors from all backgrounds and specialties are most welcome to join as authors and reviewers!

the new version of abcrf

Posted in pictures, R, Statistics, University life with tags , , , , , , on June 7, 2016 by xi'an

gaarden tree, Jan. 16, 2012A new version of the R package abcrf has been posted on Friday by Jean-Michel Marin, in conjunction with the recent arXival of our paper on point estimation via ABC and random forests. The new R functions come to supplement the existing ones towards implementing ABC point estimation:

  1. covRegAbcrf, which predicts the posterior covariance between those two response variables, given a new dataset of summaries.
  2. plot.regAbcrf, which provides a variable importance plot;
  3. predict.regabcrf, which predicts the posterior expectation, median, variance, quantiles for a given parameter and a new dataset;
  4. regAbcrf, which produces a regression random forest from a reference table aimed out predicting posterior expectation, variance and quantiles for a parameter;
  5. snp, a simulated example in population genetics used as reference table in our Bioinformatics paper.

Unfortunately, we could not produce directly a diyabc2abcrf function for translating a regular DIYABC output into a proper abcrf format, since the translation has to occur in DIYABC instead. And even this is not a straightforward move (to be corrected in the next version of DIYABC).