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High-throughput sequence alignment using Graphics Processing Units

High-throughput sequence alignment using Graphics Processing Units

High-throughput sequence alignment using Graphics Processing Units. Michael C Schatz, Cole Trapnell, Arthur L Delcher, Amitabh Varshney UMD Presented by Steve Rumble. Motivation. NGS technologies produce a ton of data AB SOLiD: 22e6 25-mers Others are even worse…

By libitha
(647 views)

Towards Mobile Cryptography

Towards Mobile Cryptography

Towards Mobile Cryptography. Thomas Sander and Christian Tschudin International Computer Science Institute Berkeley, California. Mobile Code. Mobile computing: Applications have to handle extended off-line periods Mobile agents – carry request to server, execute, return results.

By daniel_millan
(415 views)

Inheritance: runtime vs. compile time binding

Inheritance: runtime vs. compile time binding

Mammal. gestate() giveBirth(). human. elephant. rabbit. Inheritance: runtime vs. compile time binding. virtual functions which function is actually called? determined at run-time must call through pointer or reference

By Jimmy
(221 views)

Phylogenetic Tree

Phylogenetic Tree

Phylogenetic Tree. Phylogenetic Tree: What it is. Drawing evolutionary tree from characteristics of organisms or some measured distances between them Represented as a tree where nodes are the organisms/objects and arcs are the proximity between the respective nodes

By katina
(223 views)

Some new sequencing technologies

Some new sequencing technologies

Some new sequencing technologies. Molecular Inversion Probes. Single Molecule Array for Genotyping—Solexa. Nanopore Sequencing. http://www.mcb.harvard.edu/branton/index.htm. Pyrosequencing on a chip. Mostafa Ronaghi, Stanford Genome Technologies Center 454 Life Sciences. Polony Sequencing.

By kera
(289 views)

Tree-Maps: A Space-Filling Approach to the Visualization of Hierarchical Information Structures

Tree-Maps: A Space-Filling Approach to the Visualization of Hierarchical Information Structures

Tree-Maps: A Space-Filling Approach to the Visualization of Hierarchical Information Structures . Brian Johnson Ben Shneiderman (HCIL TR 91-06). Steve Betten February 14, 2001. Outline of Paper. Introduction Comparison of methods Example: directory tree Treemap method Algorithms

By redell
(143 views)

Quantum tunnel effect and alpha-decay of nuclei

Quantum tunnel effect and alpha-decay of nuclei

Quantum tunnel effect and alpha-decay of nuclei. Zhongzhou REN Department of Physics, Nanjing University, Nanjing, China Center of Theoretical Nuclear Physics, National Laboratory of Heavy-Ion Accelerator, Lanzhou, China. Outline. Introduction

By shada
(861 views)

Computer Science 2 Data Structures and Algorithms V22.0102 section 2 Introduction to Trees Professor: Evan Korth New Y

Computer Science 2 Data Structures and Algorithms V22.0102 section 2 Introduction to Trees Professor: Evan Korth New Y

Computer Science 2 Data Structures and Algorithms V22.0102 section 2 Introduction to Trees Professor: Evan Korth New York University. Road Map. Introduction to trees Terminology Binary trees Tree traversal Reading: 4.1 – 4.2. Tree. Tree defined recursively

By patty
(127 views)

Trees: basic definitions and terminology

Trees: basic definitions and terminology

Trees: basic definitions and terminology. Contrary to arrays, stacks, queues and sequences all of which are one- dimensional data structures, trees are two-dimensional data structures with hierarchical relationship between data items.

By marlie
(142 views)

The Post-Order Heap

The Post-Order Heap

The Post-Order Heap. Nick Harvey & Kevin Zatloukal. Binary Heap Review. Simple p riority queue “Heap-ordered”: parent key < children keys Insert , DeleteMin require O(log n) time. keys. 1. 3. 5. 12. 9. 11. 7. …. 15. 13. 18. 20. 12. 23. Binary Heap Review.

By zion
(467 views)

Mining Association Rules between Sets of Items in Large Databases

Mining Association Rules between Sets of Items in Large Databases

Mining Association Rules between Sets of Items in Large Databases. presented by Zhuang Wang. Outline. Introduction Formal Model Apriori Algorithm Experiments Summary. Introduction. Association rule:

By rollin
(192 views)

Heaps, HeapSort, & Priority Queues

Heaps, HeapSort, & Priority Queues

Heaps, HeapSort, & Priority Queues . Briana B. Morrison Adapted from Alan Eugenio, William J. Collins, & Michael Main. Topics. Heaps Implementation Insertion Deletion Applications Priority Queue HeapSort. Heaps. A heap is a certain kind of complete binary tree. Heaps. Root.

By cargan
(303 views)

Maximum Likelihood ( ML ) Parameter Estimation with applications to inferring phylogenetic trees Comput. Genomics, lec

Maximum Likelihood ( ML ) Parameter Estimation with applications to inferring phylogenetic trees Comput. Genomics, lec

Maximum Likelihood ( ML ) Parameter Estimation with applications to inferring phylogenetic trees Comput. Genomics, lecture 6a. Presentation taken from Nir Friedman’s HU course, available at www.cs.huji.ac.il/~pmai . Changes made by Dan Geiger, Ydo Wexler, and finally by Benny Chor.

By claral
(283 views)

Recurrences – II.

Recurrences – II.

Recurrences – II. The Master Method. Based on the Master theorem . “Cookbook” approach for solving recurrences of the form T ( n ) = aT ( n / b ) + f ( n ) a  1, b > 1 are constants. f ( n ) is asymptotically positive.

By lavada
(155 views)

A Security Pattern for a Virtual Private Network

A Security Pattern for a Virtual Private Network

A Security Pattern for a Virtual Private Network. Ajoy Kumar and Eduardo B. Fernandez Dept. of Computer Science and Eng. Florida Atlantic University Boca Raton, FL , USA. Introduction.

By kenna
(170 views)

Lecture 15 Pumping Lemma

Lecture 15 Pumping Lemma

Lecture 15 Pumping Lemma. Consider a CFG G = (V, Σ , R, S). Assume for any rule A → w in R, |w| < c for a constant c > 0. For x in L(G), consider a parse tree T for x. . s. > log c |x|. x. This tree would have at least |x| leaves. Therefore, the depth of this tree > log c |x|.

By taran
(104 views)

A Class presentation for VLSI course by : Maryam Homayouni

A Class presentation for VLSI course by : Maryam Homayouni

A Class presentation for VLSI course by : Maryam Homayouni. Based on the work presentation “ANALYSIS & MITIGATION OF CMOS GATE LEAKAGE” Rahul M.Rao, Richard B. Brown University of Michigan Kevin Nowka, Jeffry L. Burns IBM Austin Research Lab. This Work focuses on:.

By serafina
(155 views)

Voronoi Diagrams

Voronoi Diagrams

Voronoi Diagrams. e : Voronoi edge. v : Voronoi vertex. v. e. p i. Post Office: What is the area of service?. p i : site points. Definition of Voronoi Diagram. Let P be a set of n distinct points (sites) in the plane.

By milo
(106 views)

Slowly approaching grass specific gene diversification OR We need to fix those phylogenies first!

Slowly approaching grass specific gene diversification OR We need to fix those phylogenies first!

Slowly approaching grass specific gene diversification OR We need to fix those phylogenies first! . gene family:. a set of divergent but functionally related genes that descend from the same ancestral gene . species A: 5 copies. species B: 15 copies. retention of duplicated gene copies.

By kasa
(72 views)

CS 255: Database System Principles slides: From Parse Trees to Logical Query Plans

CS 255: Database System Principles slides: From Parse Trees to Logical Query Plans

CS 255: Database System Principles slides: From Parse Trees to Logical Query Plans. By:- Arunesh Joshi Id:-006538558. Agenda. Conversion to Relational Algebra. Removing Sub queries From Conditions. Improving the Logical Query Plan. Grouping Associative/Commutative Operators. . Parsing.

By trinh
(166 views)

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