projects
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projects [2012/09/05 19:28] – jonathan | projects [2015/08/11 20:43] – jarek | ||
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- | ====== | + | ====== |
- | (Listed in order received.) | + | \\ |
- | ====== Continuation | + | ===Genome-wide identification |
- | **Supervisor**: | ||
- | **Required Background**: General CSE408x prerequisites | + | **Supervisor: Katalin Hudak** |
- | **Recommended Background**: | ||
- | Structural equation modeling | + | The Hudak Lab in the Biology Department has an opening for a fourth-year Honours student to assist with a bioinformatics project. We study the pokeweed plant, Phytolacca americana, which displays broad-spectrum virus resistance. To evaluate pokeweed gene expression, we recently sequenced the plant’s mRNA and small RNA transcriptomes under jasmonic acid (JA) treatment. JA is a plant hormone |
- | The software required is an application that allows researchers to define their hypothesized models visually and will output | + | Working with the support |
- | To date a promising functional application has been developed in JAVA by a Computer Science student as a 4080 project. The existing software allows the user to draw a path diagram and outputs code for the R package sem. There are a number | + | 1) Prediction |
- | More details {{: | + | 2) Correlation of miRNA and mRNA expression changes to identify genes that are regulated by miRNAs |
- | ====== YUsend Thermal Vacuum (TVAC) Test Manager ====== | + | 3) Conducting pathway analysis to determine which biological processes are controlled by miRNAs |
- | **Supervisor**: | + | 4) Construction of a miRNA/ |
+ | This work will contribute to a scientific manuscript on miRNA-mediated gene regulation in pokeweed during response to JA. | ||
- | **Required Background**: General CSE408x prerequisites, | + | Requirements: |
- | **Description** The YUsend (York University Space Engineering Nanosatellite Demonstration) Lab has procured a Windows XP-based industrial computer and temperature acquisition card (as well as other hardware) for performing TVAC testing of nanosatellites in the CSIL Lab (PSE 003). A “TVAC Test Manager” application written using LabView' | + | 1) Pre-requisites |
- | Specific tasks include: 1. Writing temperature acquisition card (OMEGA Engineering CIO-DAS-Temp) drivers for LabView - should be written in Visual C++ or similar and compiled into SubVI format. | + | 2) Facility with script-writing/ |
+ | 3) Preference for students with knowledge of statistics and familiarity with R programming | ||
- | ====== Game Playing Framework | + | 4) Able to begin in September 2015 |
- | **Supervisor**: Jonathan Ostroff | + | Learning outcomes: |
- | **Required Background**: | + | 1) Manipulate and analyze quantitative biological data |
- | **Description** Game playing frameworks in Eiffel such as Eiffelmedia usually wrap C frameworks in Eiffel. The goal of this project is to develop (initially, a simple) framework using pure Eiffel/ | + | 2) Develop and test hypotheses by modifying existing |
- | ====== Numerical Methods ====== | + | 3) Manage a CentOS computer server to store and facilitate ongoing research |
- | **Supervisor**: | + | No knowledge of biology is required. |
- | **Required Background**: Good grade in a Numerical Methods course and good knowledge | + | For more information, |
- | of Fortran, C or similar language. | + | Hudak Lab website- http:// |
- | **Description**: Write, debug and run several Fortran programs related to solving | + | RNA sequencing- http://www.illumina.com/ |
- | polynomial equations, with a view to comparing different known methods. | + | |
- | ====== Enabling SaaS access to an experimental AI planner ====== | + | miRNAs- http:// |
- | **Supervisor**: | + | \\ |
- | **Required Background**: | ||
- | 3402 -- Functional & Logic Programming, | ||
- | 3101 -- Design and Analysis of Algorithms, | ||
- | 4302 -- Compilers and Interpreters. | ||
- | **Description**: | + | ===Dynamic Interface Detection |
- | The components are various Unix executables and LISP programs that need to interact in complex ways. The components may be residing in different servers in different universities. Currently integration is performed manually, at the expense of usability. Thus, we aim at constructing a module that: (a) integrates involved components to deliver output in one call, (b) exports a unique web interface (preferably following WSDL/SOAP) to be easily accessed by custom front-end tools by anyone, anywhere, (c ) offers a simple front-end for human users. | + | **Supervisor: Michael Jenkin** |
- | Learning objectives: | ||
- | * Understand the technologies and process involved in turning native code into a web-service (" | ||
- | * Study a state-of-the-art AI planner and understand its workings. | ||
- | * Exercise scripting skills. | ||
+ | Contrary to most industries, fine chemical manufacturing is dominated by batch production methods. Increasing economic, environmental and safety pressures are motivating a turn towards continuous synthesis. Rather than making products in one big flask, continuous synthesis involves performing chemical reactions by flowing reagents through a tube. Working in this way provides more control over the reaction parameters leading to increases in product quality, and process efficiency and safety. The flow chemistry industry for fine chemical production is a relatively new but burgeoning field with a projected market capacity of billions of dollars by 2018. | ||
- | ====== Predicting Angular Error in Rigid Registration ====== | + | Extraction of the reaction mixture for purification and/or further processing is an important step in chemical manufacturing. This is a relatively straightforward operation in batch production, but offers several challenges for flowing processes. In order to facilitate continuous liquid extraction we require a sophisticated control system. This project involves designing, constructing and evaluating a pertinent practical problem in the field. |
- | **Supervisor**: | + | A key step in the process takes place in a clear tube that is mounted vertically. The tube contains two fluids with a boundary between them. During the process material flows into and out of the tube from the top and the bottom. Chemical reactions take place within this tube and It is essential that the position of the boundary be monitored as its position in the tube is used to control the flow of materials into the tube. |
- | **Description**: | + | One way of solving this problem |
- | navigation. Several (seemingly) different approaches for predicting | + | |
- | distance errors in registration are known, but for some surgical | + | |
- | procedures, the angular error in registration is more important. | + | |
- | This project will validate an approach for predicting angular | + | |
- | error in registration; | + | |
- | simulated and actual registration data for testing purposes. | + | |
- | ====== Calibration | + | Specific goals of the project include: |
- | **Supervisor**: | + | - Develop a computer vision system that can detect and monitor the interface between two miscible fluids of different density. |
- | **Description**: Tracked pointers are the most common tools used in surgical | + | - Evaluate the performance of the system over a range of different (and typical) fluids |
- | navigation systems. A typical pointer has a tracked target on one | + | |
- | end and a sharp or ball tip on the other end. Finding | + | - Explore the use of different illuminant/ |
- | of the tip relative to the target is a calibration problem. One | + | |
- | solution | + | The successful candidate(s) will have the experience of working with a diverse group of scientists and engineers toward the design and implementation of an automated liquid extraction device with applications across many industries. Upon successful prototyping, |
- | about the tip while tracking | + | |
- | stationary, then the target moves on the surface of a sphere. | + | For further information please contact, |
- | Fitting the tracking data to the surface | + | |
- | location | + | Michael Jenkin (jenkin@cse.yorku.ca) or Michal Organ (organ@yorku.ca) |
- | calibrated tip position obtained | + | |
- | has high variance. This project will investigate how much variance | + | \\ |
- | there is in the calibrated tip position, and methods | + | ====== DDoS Attack using Google-bots ====== |
- | the variance | + | |
+ | **Supervisor**: Ntalija Vlajic | ||
+ | |||
+ | **Recommended Background**: | ||
+ | |||
+ | Not long ago, botnets - networks of compromised computers - were seen as | ||
+ | the most effective (if not the only) means of conducting Distributed Denial | ||
+ | of Service (DDoS) attacks. However, with the growing popularity and prevalence | ||
+ | of application-layer over other types of DDoS attacks, the DDoS execution | ||
+ | landscape is becoming increasingly more diverse. An especially interesting | ||
+ | new trend is the execution of application-layer DDoS attacks by means of | ||
+ | skillfully manipulated Web-crawlers, | ||
+ | The goal of this project is to design, implement | ||
+ | framework consisting of the following: a) the attacker' | ||
+ | domain specially designed to attract Google-bots and then manipulate them | ||
+ | into generating attack traffic towards the target/ | ||
+ | victim' | ||
+ | component, the project will also look into the statistical/ | ||
+ | estimation | ||
+ | to an actual (real-world) | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | \\ | ||
+ | ====== Attentive Sensing for Better Two-Way Communication in Remote Learning Environments ====== | ||
+ | |||
+ | **Supervisor**: | ||
+ | |||
+ | **Required Background**: | ||
+ | good math skills, knowledge of C and MATLAB programming languages | ||
+ | |||
+ | One of the challenges in remote learning | ||
+ | |||
+ | The goal of this project is to apply attentive sensing technology (www.elderlab.yorku.ca) to this problem. This technology is able to monitor a large environment such as a classroom and direct a high-resolution ‘attentive’ sensor to events of interest. | ||
+ | |||
+ | In particular, working with a senior graduate student or postdoctoral fellow, | ||
+ | |||
+ | - Study the problem of detecting hand-raises in the preattentive sensor stream | ||
+ | - Implement algorithms for detecting hand-raises based upon this investigation | ||
+ | - Evaluate these algorithms in a real-classroom setting, using proprietary attentive sensing technology | ||
+ | |||
+ | |||
+ | ====== Attentive Sensing for Sport Video Recording Markets ====== | ||
+ | |||
+ | **Supervisor**: | ||
+ | |||
+ | **Required Background**: | ||
+ | |||
+ | |||
+ | The goal of this project is to modify York University’s patented attentive sensor technology to the sport video recording market. | ||
+ | |||
+ | The general problem | ||
+ | |||
+ | The student will work with senior graduate students, postdoctoral fellows and research scientists to help modify | ||
+ | |||
+ | 1. | ||
+ | 2. | ||
+ | 3. | ||
+ | |||
+ | ------------ | ||
+ | |||
+ | |||
+ | \\ | ||
+ | ====== Hunting for Bugs in Logging: applying JPF to log4j ====== | ||
+ | |||
+ | **Supervisor: | ||
+ | |||
+ | Description: | ||
+ | Java PathFinder (JPF) is a tool that can detect bugs in Java code. | ||
+ | The Java library Apache log4j allows developers | ||
+ | statements are output. | ||
+ | to detect bugs in log4j by means of JPF with very limited succes. | ||
+ | |||
+ | Recently, in collaboration with Shafiei (NASA) we have developed | ||
+ | an extension | ||
+ | is to apply this extension to log4j. | ||
+ | |||
+ | [1] David A. Dickey, B. Sinem Dorter, J. Michael German, Benjamin D. Madore, Mark W. Piper, Gabriel L. Zenarosa. " | ||
+ | |||
+ | **Required Background: | ||
+ | \\ | ||
+ | ------------ | ||
+ | \\ | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | ====== Mining Software Repositories Data====== | ||
+ | |||
+ | **Supervisor: | ||
+ | |||
+ | **Required Background: | ||
+ | |||
+ | **Short Description: | ||
+ | |||
+ | \\ | ||
+ | ------------------ | ||
+ | \\ | ||
+ | |||
+ | |||
+ | |||
+ | ======Model-based Design and Development of Embedded Systems with Code Generation Tools====== | ||
+ | |||
+ | **Supervisor: | ||
+ | |||
+ | **Required Background: | ||
+ | such as Arduino. | ||
+ | |||
+ | **Project Description: | ||
+ | |||
+ | Model-based design with code generation tools can be used for simulation, rapid prototyping, | ||
+ | |||
+ | \\ | ||
+ | ------------------ | ||
+ | \\ | ||
+ | |||
+ | ======C2000 Concerto Microcontrollers====== | ||
+ | |||
+ | **Supervisor: | ||
+ | |||
+ | **Required Background: | ||
+ | strong C programming skills, solid knowledge of microcontrollers | ||
+ | |||
+ | **Description: | ||
+ | two cores on a single-chip with on-chip low latency interprocessor communication between | ||
+ | real-time control with faster/more loops and small sampling window; | ||
+ | and an ARM 32-bit Cortex-M3 host core for communications and general purpose. The selected student will evaluate the capabilities of the | ||
+ | C2000 Concerto family of microcontrollers through testing and investigating open source software for real-time control applications | ||
+ | that runs on C2000 Concerto Microcontrollers. | ||
+ | |||
+ | \\ | ||
+ | ------------------ | ||
+ | \\ | ||
+ | |||
+ | ======Real-Time Bidding Platform====== | ||
+ | |||
+ | **Supervisor: | ||
+ | |||
+ | **Required Background: | ||
+ | (CSE3221), strong Ubuntu/ | ||
+ | |||
+ | **Description: | ||
+ | |||
+ | \\ | ||
+ | ------------------ | ||
+ | \\ | ||
+ | |||
+ | ======Circuit and Board Design for a Pulsed Ground Penetrating Radar====== | ||
+ | |||
+ | **Supervisor: | ||
+ | |||
+ | **Description: | ||
+ | |||
+ | **Required Background** A background in undergraduate-level electronics is very important. | ||
+ | |||
+ | \\ | ||
+ | ------------------ | ||
+ | \\ | ||
+ | More project proposals may be added here in the first week of the winter term. | ||
+ | \\ | ||
+ | ------------------ | ||
+ | \\ | ||
+ | \\ |
projects.txt · Last modified: 2016/01/13 20:05 by stevenc