'Sushmita roy bmi cs' presentation slideshows

Introduction to Networks

Introduction to Networks. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576 sroy@biostat.wisc.edu Nov 14 th , 2013. Key concepts in networks. What are molecular networks? Different types of networks Algorithms for network reconstruction Classes of methods for network inference

758 views • 58 slides

Bayesian Networks for Modeling Gene Expression Data

Bayesian Networks for Modeling Gene Expression Data. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576 sroy@biostat.wisc.edu Nov 19 th , 2013. Bayesian networks (BN). A BN compactly represents a joint probability distribution It has two parts: A graph which is directed and acyclic

538 views • 38 slides

Flat clustering approaches for high-throughput omic datasets

Flat clustering approaches for high-throughput omic datasets. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576 sroy@biostat.wisc.edu Nov 7 th , 2013. Key concepts to take away. What are high-throughput methods and datasets?

496 views • 38 slides

Bayesian Networks for Modeling Gene Expression Data

Bayesian Networks for Modeling Gene Expression Data. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576 sroy@biostat.wisc.edu Nov 19 th , 2013. Bayesian networks (BN). A BN compactly represents a joint probability distribution It has two parts: A graph which is directed and acyclic

570 views • 38 slides

Primer on Probability

Primer on Probability. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576/ Sushmita Roy sroy@biostat.wisc.edu Sep 25 th , 2012. BMI/CS 576. Definition of probability.

481 views • 33 slides

Primer on Probability

Primer on Probability. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576/ Sushmita Roy sroy@biostat.wisc.edu Sep 25 th , 2012. BMI/CS 576. Definition of probability.

443 views • 33 slides

Pairwise Sequence Alignment

912 views • 32 slides

Pairwise Sequence Alignment

504 views • 32 slides

Markov models and applications

Markov models and applications. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576/ sroy@biostat.wisc.edu Oct 15 th , 2013. Key concepts. Markov chains Computing the probability of a sequence Estimating parameters of a Markov model Hidden Markov models States

644 views • 29 slides

Practical algorithms in Sequence Alignment

Practical algorithms in Sequence Alignment. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576/ sroy@biostat.wisc.edu Sep 17 th , 2013. Key concepts. Extreme value distribution gives an analytical form to compute the significance of a score Heuristic algorithms BLAST algorithm

390 views • 29 slides

Markov models and applications

Markov models and applications. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576/ sroy@biostat.wisc.edu Oct 15 th , 2013. Key concepts. Markov chains Computing the probability of a sequence Estimating parameters of a Markov model Hidden Markov models States

463 views • 29 slides

Multiple Sequence Alignment

Multiple Sequence Alignment. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576/ Sushmita Roy sroy@biostat.wisc.edu Oct 2nd, 2012. BMI/CS 576. Multiple Sequence Alignment: Task Definition. Given a set of more than 2 sequences a method for scoring an alignment Do:

453 views • 27 slides

Phylogenetic trees

Phylogenetic trees. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576/ sroy@biostat.wisc.edu Oct 3 rd , 2013. Phylogenetic tree construction. Distance-based methods Parsimony methods Probabilistic methods. Parsimony.

518 views • 24 slides

Learning HMM parameters

Learning HMM parameters. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576/ sroy@biostat.wisc.edu Oct 31 st , 2013. Recall the three questions in HMMs. Given a sequence of observations how likely is it an HMM to have generated it? Forward algorithm

399 views • 23 slides

Learning HMM parameters

Learning HMM parameters. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576/ sroy@biostat.wisc.edu Oct 31 st , 2013. Recall the three questions in HMMs. Given a sequence of observations how likely is it an HMM to have generated it? Forward algorithm

343 views • 23 slides

Hidden Markov models

Hidden Markov models. Sushmita Roy BMI/CS 576 www.biostat.wisc.edu/bmi576/ sroy@biostat.wisc.edu Oct 24 th , 2013. Key concepts. What are Hidden Markov models ( HMMs )? States, transitions, emissions Key algorithms to solve these problems in HMMs

380 views • 23 slides

BLAST addendum

132 views • 4 slides

BLAST addendum

106 views • 4 slides