Inferring the mode of origin of polyploid species from next-generation sequence data.

Many eukaryote organisms are polyploid. However, despite their importance, evolutionary inference of polyploid origins and modes of inheritance has been limited by a need for analyses of allele segregation at multiple loci using crosses. The increasing availability of sequence data for nonmodel species now allows the application of established approaches for the analysis of genomic data in polyploids. Here, we ask whether approximate Bayesian computation (ABC), applied to realistic traditional and next-generation sequence data, allows correct inference of the evolutionary and demographic history of polyploids. Using simulations, we evaluate the robustness of evolutionary inference by ABC for tetraploid species as a function of the number of individuals and loci sampled, and the presence or absence of an outgroup. We find that ABC adequately retrieves the recent evolutionary history of polyploid species on the basis of both old and new sequencing technologies. The application of ABC to sequence data from diploid and polyploid species of the plant genus Capsella confirms its utility. Our analysis strongly supports an allopolyploid origin of C. bursa-pastoris about 80 000 years ago. This conclusion runs contrary to previous findings based on the same data set but using an alternative approach and is in agreement with recent findings based on whole-genome sequencing. Our results indicate that ABC is a promising and powerful method for revealing the evolution of polyploid species, without the need to attribute alleles to a homeologous chromosome pair. The approach can readily be extended to more complex scenarios involving higher ploidy levels.

Repeatability in automatic sorting of curved Norway spruce saw logs

Abstract

Beyond the Net Generation debate: A comparison between digital learners in face-to-face and virtual universities

This paper is based on the hypothesis that the use of technology to support learning is not related to whether a student belongs to the Net Generation, but that it is mainly influenced by the teaching model. The study compares behaviour and preferences towards ICT use in two groups of university students: face-to-face students and online students. A questionnaire was applied to asample of students from five universities with different characteristics (one offers online education and four offer face-to-face education with LMS teaching support).

A survey on automatic recommenders in the context of institutional repositories

Peer-reviewed

Is It Possible to Predict the Manual Web Accessibility Result Using the Automatic Result?

The most adequate approach for benchmarking web accessibility is manual expert evaluation supplemented by automatic analysis tools. But manual evaluation has a high cost and is impractical to be applied on large websites. In reality, there is no choice but to rely on automated tools when reviewing large web sites for accessibility. The question is: to what extent the results from automatic evaluation of a web site and individual web pages can be used as an approximation for manual results? This paper presents the initial results of an investigation aimed at answering this question. He have performed both manual and automatic evaluations of the accessibility of web pages of two sites and we have compared the results. In our data set automatically retrieved results could most definitely be used as an approximation manual evaluation results.

Automatic acquisition of Named Entities for Rule-Based Machine Translation

This paper proposes to enrich RBMTdictionaries with Named Entities(NEs) automatically acquired fromWikipedia. The method is appliedto the Apertium English-Spanishsystem and its performance comparedto that of Apertium with and withouthandtagged NEs. The system withautomatic NEs outperforms the onewithout NEs, while results vary whencompared to a system with handtaggedNEs (results are comparable forSpanish to English but slightly worstfor English to Spanish). Apart fromthat, adding automatic NEs contributesto decreasing the amount of unknownterms by more than 10%.

Automatic Decision-Oriented Mapping of Pollution Data

The paper deals with the development and application of the methodology for automatic mapping of pollution/contamination data. General Regression Neural Network (GRNN) is considered in detail and is proposed as an efficient tool to solve this problem. The automatic tuning of isotropic and an anisotropic GRNN model using cross-validation procedure is presented. Results are compared with k-nearest-neighbours interpolation algorithm using independent validation data set. Quality of mapping is controlled by the analysis of raw data and the residuals using variography. Maps of probabilities of exceeding a given decision level and ?thick? isoline visualization of the uncertainties are presented as examples of decision-oriented mapping. Real case study is based on mapping of radioactively contaminated territories.

On the Condition Monitoring of Induction machines

The research of condition monitoring of electric motors has been wide for several decades. The research and development at universities and in industry has provided means for the predictive condition monitoring. Many different devices and systems are developed and are widely used in industry, transportation and in civil engineering. In addition, many methods are developed and reported in scientific arenas in order to improve existing methods for the automatic analysis of faults. The methods, however, are not widely used as a part of condition monitoring systems. The main reasons are, firstly, that many methods are presented in scientific papers but their performance in different conditions is not evaluated, secondly, the methods include parameters that are so case specific that the implementation of a systemusing such methods would be far from straightforward. In this thesis, some of these methods are evaluated theoretically and tested with simulations and with a drive in a laboratory. A new automatic analysis method for the bearing fault detection is introduced. In the first part of this work the generation of the bearing fault originating signal is explained and its influence into the stator current is concerned with qualitative and quantitative estimation. The verification of the feasibility of the stator current measurement as a bearing fault indicatoris experimentally tested with the running 15 kW induction motor. The second part of this work concentrates on the bearing fault analysis using the vibration measurement signal. The performance of the micromachined silicon accelerometer chip in conjunction with the envelope spectrum analysis of the cyclic bearing faultis experimentally tested. Furthermore, different methods for the creation of feature extractors for the bearing fault classification are researched and an automatic fault classifier using multivariate statistical discrimination and fuzzy logic is introduced. It is often important that the on-line condition monitoring system is integrated with the industrial communications infrastructure. Two types of a sensor solutions are tested in the thesis: the first one is a sensor withcalculation capacity for example for the production of the envelope spectra; the other one can collect the measurement data in memory and another device can read the data via field bus. The data communications requirements highly depend onthe type of the sensor solution selected. If the data is already analysed in the sensor the data communications are needed only for the results but in the other case, all measurement data need to be transferred. The complexity of the classification method can be great if the data is analysed at the management level computer, but if the analysis is made in sensor itself, the analyses must be simple due to the restricted calculation and memory capacity.

Upgrading of thethird generation of the Remote Diagnostic Systems for ABB Marine Propulsion Systems

Remote diagnostics has become very popular in marine industry. Diagnostic systems are improved all the time and the newest monitoring systems are constantly taken into operation. Most vessels are, however, rigged up by outmoded facilities, which should be updated. In this work the principles of operating of such a remote diagnostic system as the ABB's third generation remote diagnostic system (RDS) and the newest Propulsion Condition Management System (PCMS) are studied. As a result of the thesis the ways of upgrading the old systems of RDS are presented. Specifically, the work focuses on the establishment of the connection between Advant controller AC-110 from the old system and PCMS server, and in other words how to get Modbus data by OPC server.

Investment Determinants and Future Shape of Russia's Power Generation

The reformation of power sector is still in the process of development. The present day situation in Russian electricity power market ischaracterized as transitional period: competitive electricity market is forming, new companies are being created and the power of government regulation is decreasing. The main aim of the reformation is to attract much-needed private investments to the power sector. The electricity consumption increases very rapidly and power sector has to cope with high demand. The goal of this master's thesis is to analyze the nowadays situation in Russian power sector, such as generation structure, condition of electricity networks, electricity price formation for end-users, shape of fuel sector and investments risks and attraction.The final result of this work is creation of scenario of Russian power sector future shape and analysis of the present day situation.

Evaluation of Routing solution for Next Generation Open Platform

Verkkoon kytkettävien laitteiden määrä on lisääntynyt viime vuosina, joka luo tarpeen reitittimille ja niiden ominaisuuksille. On muodostunut uusi tarve laitteille, jotka voivat yhdistää erilaisia verkkoja toisiinsa. Tällaisen reitittimen rakentamiseen tarvitaan vakaa alusta. Tällaisella alustalla luodaan mahdollisuus kuormittaa järjestelmää ilman suuria ongelmia. Tällainen alusta on Open Platform, joka on suunniteltu tällaisille toiminnoille ja yhdessä oikeanlaisen verkkoratkaisun kanssa sitä voidaan käyttää sille suunnitellussa ympäristössä. Tämän diplomityön tarkoituksena on arvioida neljää eri reititysohjelmistoa ja kahta eri IP pinoa. Työssä käytetyt testit on suunniteltu arviointia varten ja niiden tarkoituksena on tuoda esille ohjelmistoissa esiintyvät viat ja ongelmat. Kaikki testit ovat samoja kaikille ohjelmille ja tehdään samassa ympäristössä. Testit analysoidaan niiden ajon jälkeen ja niiden tulosten avulla tehdään päätös mitä näistä ohjelmistoista tullaan käyttämään seuraavan sukupolven avoimella alustalla, joka tulee toimimaan Nokian Intelligent Service Nodessa. Tämä verkon laite toimii yhdyskäytävänäerilaisten verkkojen välillä.

3G SGSN Toiminnallisuustestauksen Automatisointi

3G SGSN (3rd Generation Serving GPRS Support Node) onUMTS (Universal Mobile Telecommunications System) pakettiverkon verkkoelementti, joka toimii linkkinä ulkoisen verkon(kuten Internet) ja radioverkon välillä. 3G SGSN ylläpitää tilaajan tietoja ja paikannustietoja päätelaitteen liikkuessa verkon sisällä ja välittää myös dataa ulkoisen verkon ja mobiilipäätelaitteen välillä. Tämän diplomityön aiheena on 3G SGSN toiminnallisuus-testauksen automatisointi. Työssä kehitetään 3G SGSN toiminnallisuustestaukseen soveltuva testauksen automatisointijärjestelmä Linux-ympäristössä AuTS (Automated Test Sequences)-automatisointityökalulla. Kehitystyöhön kuuluu järjestelmän suunnittelu ja toteutus. Toteutettu automatisointijärjestelmä suorittaa 3G SGSN toiminnallisuustestauksen istunnon- ja liikkuvuudenhallinnan testitapauksia.Suoritettujen testitapausten tuloksista luodaan HTML (Hypertext Markup Language)-raportti, joka sisältää tiedot ja analyysit suoritetuista testitapauksista sekä linkit testitapausten lokitietoihin. Hyvä automatisointi vaatii suunnittelua, jossa huomioidaan käytettävyys ja ylläpidettävyys. Näihin ominaisuuksiin on toteutuksessa kiinnitetty erityistä huomiota. Lopputuloksena saatiin toimiva automatisointijärjestelmä, joka osoittaa automatisoinnin tuovan huomattavia etuja toiminnallisuustestauksen tehokkuuteen. Työssä käsitelläänmyös ohjelmistotestausta sekä testauksen automatisointia ja niiden periaatteita.

Integrating testcase generator into Eclipse environment

Tämädiplomityö tutkii kuinka Eclipse -ympäristöä voidaan käyttää testitapausten generoinnissa. Eräs diplomityön pääaiheista on tutkia voidaanko olemassa olevilla Eclipsen komponenteilla parantaa symboolitietoutta, jotta testitapausten generointiin saataisiin lisää tietoa. Aluksi diplomityö antaa lyhyen katsauksen ohjelmistojentestaukseen, jotta lukija ymmärtää mitä ohjelmistotekniikan osa-aluetta diplomityö käsittelee. Tämän jälkeen kerrotaan lisää tietoa itse testitapausten generointiprosessista. Kun perusteet on käsitelty, tutustetaan lukija Eclipse -ympäristöön, mikä se on, mistä se koostuu ja mitä sillä voidaan tehdä. Tarkempaa tietoa kerrotaan Eclipsen komponenteista joita voidaan käyttää apuna testitapausten generoinnissa. Integrointi esimerkkinä diplomityössä esitellään valmiin testitapausgeneraattorin integrointi Eclipse -ympäristöön. Lopuksi Eclipse -pohjaista ratkaisua verrataan symboolitietouden sekä ajoajan kannalta aikaisempaan ratkaisuun. Diplomityön tuloksena syntyi prototyyppi jonka avulla todistettiin, että Eclipse - ympäristöön on mahdollista integroida testitapausgeneraattori ja että se voi lisätä symboolitietoutta. Tämätietouden lisäys kuitenkin lisäsi myös tarvittavaa ajoaikaa, joissakintapauksissa jopa merkittävästi. Samalla todettiin, että tällä hetkellä on menossa projekteja joiden tarkoituksena on parantaa käytettyjen Eclipse komponenttien suorituskykyä ja että tämä voi parantaa tuloksia tulevaisuudessa.