jefinch20 / dnarm Goto Github PK
View Code? Open in Web Editor NEWThis project forked from jdegges/dnarm
DNA read mapper will map short reads to the entire genome using all of your cores -- and GPU too
License: Other
This project forked from jdegges/dnarm
DNA read mapper will map short reads to the entire genome using all of your cores -- and GPU too
License: Other
DNArm: A fast DNA read mapper Project Description: Develop and implement an algorithm for efficiently mapping short reads of DNA (~30 bases) to the entire genome (~3,000,000,000 bases). In more computer science terms: map strings of length 30 to a constant string of length 3 billion characters. In addition, all mappings that match 28/30 characters should be considered positive. Parallelization Techniques: (a) Build a tree of depth 30 with branching factor 5 (one branch to help with fuzzy matching) and have different execution units search through the tree for matches at the same time. The whole tree wont be able to fit into main memory at once but trees are easily broken into components that will fit. (b) Generate an index of the genome using strings of length 10. Look up each 1/3rd of a short read in the index and then search through the possible locations in different execution units. (c) Combining the tree, index, and maybe some other types of data structures that we could use to further decompose the search. Hardware/Technologies: OpenCL Webpage: http://cs124project-2010.wikidot.com/133-124-joint-proj Google group: http://groups.google.com/group/ucla-cs133cm124
A declarative, efficient, and flexible JavaScript library for building user interfaces.
๐ Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
An Open Source Machine Learning Framework for Everyone
The Web framework for perfectionists with deadlines.
A PHP framework for web artisans
Bring data to life with SVG, Canvas and HTML. ๐๐๐
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
Some thing interesting about web. New door for the world.
A server is a program made to process requests and deliver data to clients.
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
Some thing interesting about visualization, use data art
Some thing interesting about game, make everyone happy.
We are working to build community through open source technology. NB: members must have two-factor auth.
Open source projects and samples from Microsoft.
Google โค๏ธ Open Source for everyone.
Alibaba Open Source for everyone
Data-Driven Documents codes.
China tencent open source team.