Parametric inference for biological sequence analysis

DOI10.1073/pnas.0406011101zbMath1075.62101arXivq-bio/0401033OpenAlexW1990561950WikidataQ37621694 ScholiaQ37621694MaRDI QIDQ5460861

Lior Pachter, Bernd Sturmfels

Publication date: 19 July 2005

Published in: Proceedings of the National Academy of Sciences (Search for Journal in Brave)

Full work available at URL: https://arxiv.org/abs/q-bio/0401033

Mathematics Subject Classification ID

Applications of statistics to biology and medical sciences; meta analysis (62P10) Biochemistry, molecular biology (92C40)

Related Items

On the Structure of RNA Branching Polytopes ⋮ Optimality regions and fluctuations for Bernoulli last passage models ⋮ Parametric maximum parsimonious reconstruction on trees ⋮ Indispensable monomials of toric ideals and Markov bases ⋮ Viterbi sequences and polytopes ⋮ Lower bounds for optimal alignments of binary sequences ⋮ Parametric analysis of RNA branching configurations ⋮ Parametric analysis of alignment and phylogenetic uncertainty ⋮ FunCat functional inference with belief propagation and feature integration ⋮ Tropical geometry of statistical models

Uses Software

• polymake

Cites Work

• Parametric optimization of sequence alignment
• Bayesian network classifiers
• Factor graphs and the sum-product algorithm
• Tropical geometry of statistical models
• Extended convex hull