Projects that are tagged with variational inference.


Logo FABIA 2.8.0

by hochreit - October 18, 2013, 10:14:57 CET [ Project Homepage BibTeX BibTeX for corresponding Paper Download ] 8307 views, 1743 downloads, 1 subscription

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About: FABIA is a biclustering algorithm that clusters rows and columns of a matrix simultaneously. Consequently, members of a row cluster are similar to each other on a subset of columns and, analogously, members of a column cluster are similar to each other on a subset of rows. Biclusters are found by factor analysis where both the factors and the loading matrix are sparse. FABIA is a multiplicative model that extracts linear dependencies between samples and feature patterns. Applications include detection of transcriptional modules in gene expression data and identification of haplotypes/>identity by descent< consisting of rare variants obtained by next generation sequencing.

Changes:

CHANGES IN VERSION 2.8.0

NEW FEATURES

o rescaling of lapla
o extractPlot does not plot sorted matrices

CHANGES IN VERSION 2.4.0

o spfabia bugfixes

CHANGES IN VERSION 2.3.1

NEW FEATURES

o Getters and setters for class Factorization

2.0.0:

  • spfabia: fabia for a sparse data matrix (in sparse matrix format) and sparse vector/matrix computations in the code to speed up computations. spfabia applications: (a) detecting >identity by descent< in next generation sequencing data with rare variants, (b) detecting >shared haplotypes< in disease studies based on next generation sequencing data with rare variants;
  • fabia for non-negative factorization (parameter: non_negative);
  • changed to C and removed dependencies to Rcpp;
  • improved update for lambda (alpha should be smaller, e.g. 0.03);
  • introduced maximal number of row elements (lL);
  • introduced cycle bL when upper bounds nL or lL are effective;
  • reduced computational complexity;
  • bug fixes: (a) update formula for lambda: tighter approximation, (b) corrected inverse of the conditional covariance matrix of z;

1.4.0:

  • New option nL: maximal number of biclusters per row element;
  • Sort biclusters according to information content;
  • Improved and extended preprocessing;
  • Update to R2.13

Logo BayesPy 0.1

by jluttine - September 25, 2013, 16:10:58 CET [ Project Homepage BibTeX Download ] 744 views, 247 downloads, 1 subscription

About: Variational Bayesian inference tools for Python

Changes:

Initial Announcement on mloss.org.


About: Matlab implementation of variational gaussian approximate inference for Bayesian Generalized Linear Models.

Changes:

Code restructure and bug fix.


Logo NetPro 1.1.17

by lml - January 25, 2011, 19:02:53 CET [ Project Homepage BibTeX BibTeX for corresponding Paper Download ] 3092 views, 729 downloads, 1 subscription

About: Tools for functional network analysis.

Changes:

Initial Announcement on mloss.org.


About: Matlab code for performing variational inference in the Indian Buffet Process with a linear-Gaussian likelihood model.

Changes:

Initial Announcement on mloss.org.