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Algorithms in Bioinformatics [[electronic resource] ] : 5th International Workshop, WABI 2005, Mallorca, Spain, October 3-6, 2005, Proceedings / / edited by Rita Casadio, Gene Myers
| Algorithms in Bioinformatics [[electronic resource] ] : 5th International Workshop, WABI 2005, Mallorca, Spain, October 3-6, 2005, Proceedings / / edited by Rita Casadio, Gene Myers |
| Edizione | [1st ed. 2005.] |
| Pubbl/distr/stampa | Berlin, Heidelberg : , : Springer Berlin Heidelberg : , : Imprint : Springer, , 2005 |
| Descrizione fisica | 1 online resource (X, 436 p.) |
| Disciplina | 572.0285 |
| Collana | Lecture Notes in Bioinformatics |
| Soggetto topico |
Life sciences
Computer programming Algorithms Data structures (Computer science) Computers Computer science—Mathematics Life Sciences, general Programming Techniques Algorithm Analysis and Problem Complexity Data Structures Computation by Abstract Devices Discrete Mathematics in Computer Science |
| Soggetto non controllato | WABI |
| Formato | Materiale a stampa  |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Expression -- Spectral Clustering Gene Ontology Terms to Group Genes by Function -- Dynamic De-Novo Prediction of microRNAs Associated with Cell Conditions: A Search Pruned by Expression -- Clustering Gene Expression Series with Prior Knowledge -- A Linear Time Biclustering Algorithm for Time Series Gene Expression Data -- Time-Window Analysis of Developmental Gene Expression Data with Multiple Genetic Backgrounds -- Phylogeny -- A Lookahead Branch-and-Bound Algorithm for the Maximum Quartet Consistency Problem -- Computing the Quartet Distance Between Trees of Arbitrary Degree -- Using Semi-definite Programming to Enhance Supertree Resolvability -- An Efficient Reduction from Constrained to Unconstrained Maximum Agreement Subtree -- Pattern Identification in Biogeography -- On the Complexity of Several Haplotyping Problems -- A Hidden Markov Technique for Haplotype Reconstruction -- Algorithms for Imperfect Phylogeny Haplotyping (IPPH) with a Single Homoplasy or Recombination Event -- Networks -- A Faster Algorithm for Detecting Network Motifs -- Reaction Motifs in Metabolic Networks -- Reconstructing Metabolic Networks Using Interval Analysis -- Genome Rearrangements -- A 1.375-Approximation Algorithm for Sorting by Transpositions -- A New Tight Upper Bound on the Transposition Distance -- Perfect Sorting by Reversals Is Not Always Difficult -- Minimum Recombination Histories by Branch and Bound -- Sequences -- A Unifying Framework for Seed Sensitivity and Its Application to Subset Seeds -- Generalized Planted (l,d)-Motif Problem with Negative Set -- Alignment of Tandem Repeats with Excision, Duplication, Substitution and Indels (EDSI) -- The Peres-Shields Order Estimator for Fixed and Variable Length Markov Models with Applications to DNA Sequence Similarity -- Multiple Structural RNA Alignment with Lagrangian Relaxation -- Faster Algorithms for Optimal Multiple Sequence Alignment Based on Pairwise Comparisons -- Ortholog Clustering on a Multipartite Graph -- Linear Time Algorithm for Parsing RNA Secondary Structure -- A Compressed Format for Collections of Phylogenetic Trees and Improved Consensus Performance -- Structure -- Optimal Protein Threading by Cost-Splitting -- Efficient Parameterized Algorithm for Biopolymer Structure-Sequence Alignment -- Rotamer-Pair Energy Calculations Using a Trie Data Structure -- Improved Maintenance of Molecular Surfaces Using Dynamic Graph Connectivity -- The Main Structural Regularities of the Sandwich Proteins -- Discovery of Protein Substructures in EM Maps. |
| Record Nr. | UNISA-996465841003316 |
| Berlin, Heidelberg : , : Springer Berlin Heidelberg : , : Imprint : Springer, , 2005 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. di Salerno | ||
| ||
Algorithms in bioinformatics : 5th international workshop, WABI 2005, Mallorca, Spain, October 3-6, 2005 : proceedings / / Rita Casadio, Gene Myers (eds.)
| Algorithms in bioinformatics : 5th international workshop, WABI 2005, Mallorca, Spain, October 3-6, 2005 : proceedings / / Rita Casadio, Gene Myers (eds.) |
| Edizione | [1st ed. 2005.] |
| Pubbl/distr/stampa | Berlin ; ; New York, : Springer, c2005 |
| Descrizione fisica | 1 online resource (X, 436 p.) |
| Disciplina | 572.0285 |
| Altri autori (Persone) |
CasadioRita
MyersGene <1953-> |
| Collana | Lecture notes in computer science,Lecture notes in bioinformatics |
| Soggetto topico |
Bioinformatics - Mathematics
Algorithms |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Expression: Hybrid methods. Time Patterns -- Phylogeny: Quartets. Tree reconciliation. Clades and haplotypes -- Networks -- Genome rearrangements: Transposition model. Other models -- Sequences: Strings. Multi-alignment and clustering. Clustering and representation -- Structure: Threading. Folding. |
| Altri titoli varianti | WABI 2005 |
| Record Nr. | UNINA-9910482997403321 |
| Berlin ; ; New York, : Springer, c2005 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Algorithms in Bioinformatics [[electronic resource] ] : 4th International Workshop, WABI 2004, Bergen, Norway, September 17-21, 2004, Proceedings / / edited by Inge Jonassen, Junhyong Kim
| Algorithms in Bioinformatics [[electronic resource] ] : 4th International Workshop, WABI 2004, Bergen, Norway, September 17-21, 2004, Proceedings / / edited by Inge Jonassen, Junhyong Kim |
| Edizione | [1st ed. 2004.] |
| Pubbl/distr/stampa | Berlin, Heidelberg : , : Springer Berlin Heidelberg : , : Imprint : Springer, , 2004 |
| Descrizione fisica | 1 online resource (IX, 477 p.) |
| Disciplina | 572.0285 |
| Collana | Lecture Notes in Bioinformatics |
| Soggetto topico |
Biochemistry
Computer programming Algorithms Computers Data structures (Computer science) Computer science—Mathematics Biochemistry, general Programming Techniques Algorithm Analysis and Problem Complexity Computation by Abstract Devices Data Structures Discrete Mathematics in Computer Science |
| Soggetto non controllato |
WABI
Algorithms Bioinformatics |
| ISBN | 3-540-30219-0 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Papers -- Reversing Gene Erosion – Reconstructing Ancestral Bacterial Genomes from Gene-Content and Order Data -- Reconstructing Ancestral Gene Orders Using Conserved Intervals -- Sorting by Reversals with Common Intervals -- A Polynomial-Time Algorithm for the Matching of Crossing Contact-Map Patterns -- A 1.5-Approximation Algorithm for Sorting by Transpositions and Transreversals -- Algorithms for Finding Maximal-Scoring Segment Sets -- Gapped Local Similarity Search with Provable Guarantees -- Monotone Scoring of Patterns with Mismatches -- Suboptimal Local Alignments Across Multiple Scoring Schemes -- A Faster Reliable Algorithm to Estimate the p-Value of the Multinomial llr Statistic -- Adding Hidden Nodes to Gene Networks -- Joint Analysis of DNA Copy Numbers and Gene Expression Levels -- Searching for Regulatory Elements of Alternative Splicing Events Using Phylogenetic Footprinting -- Supervised Learning-Aided Optimization of Expert-Driven Functional Protein Sequence Annotation -- Multiple Vector Seeds for Protein Alignment -- Solving the Protein Threading Problem by Lagrangian Relaxation -- Protein-Protein Interfaces: Recognition of Similar Spatial and Chemical Organizations -- ATDD: An Algorithmic Tool for Domain Discovery in Protein Sequences -- Local Search Heuristic for Rigid Protein Docking -- Sequence Database Compression for Peptide Identification from Tandem Mass Spectra -- Linear Reduction for Haplotype Inference -- A New Integer Programming Formulation for the Pure Parsimony Problem in Haplotype Analysis -- Fast Hare: A Fast Heuristic for Single Individual SNP Haplotype Reconstruction -- Approximation Algorithms for the Selection of Robust Tag SNPs -- The Minisatellite Transformation Problem Revisited: A Run Length Encoded Approach -- A Faster and More Space-Efficient Algorithm for Inferring Arc-Annotations of RNA Sequences Through Alignment -- New Algorithms for Multiple DNA Sequence Alignment -- Chaining Algorithms for Alignment of Draft Sequence -- Translation Initiation Sites Prediction with Mixture Gaussian Models -- Online Consensus and Agreement of Phylogenetic Trees -- Relation of Residues in the Variable Region of 16S rDNA Sequences and Their Relevance to Genus-Specificity -- Topological Rearrangements and Local Search Method for Tandem Duplication Trees -- Phylogenetic Super-networks from Partial Trees -- Genome Identification and Classification by Short Oligo Arrays -- Novel Tree Edit Operations for RNA Secondary Structure Comparison -- The Most Probable Labeling Problem in HMMs and Its Application to Bioinformatics -- Integrating Sample-Driven and Pattern-Driven Approaches in Motif Finding -- Finding Optimal Pairs of Patterns -- Finding Missing Patterns. |
| Record Nr. | UNISA-996465434003316 |
| Berlin, Heidelberg : , : Springer Berlin Heidelberg : , : Imprint : Springer, , 2004 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. di Salerno | ||
| ||
Algorithms in Bioinformatics : 4th International Workshop, WABI 2004, Bergen, Norway, September 17-21, 2004, Proceedings / / edited by Inge Jonassen, Junhyong Kim
| Algorithms in Bioinformatics : 4th International Workshop, WABI 2004, Bergen, Norway, September 17-21, 2004, Proceedings / / edited by Inge Jonassen, Junhyong Kim |
| Edizione | [1st ed. 2004.] |
| Pubbl/distr/stampa | Berlin, Heidelberg : , : Springer Berlin Heidelberg : , : Imprint : Springer, , 2004 |
| Descrizione fisica | 1 online resource (IX, 477 p.) |
| Disciplina | 572.0285 |
| Collana | Lecture Notes in Bioinformatics |
| Soggetto topico |
Biochemistry
Computer programming Algorithms Computers Data structures (Computer science) Computer science—Mathematics Biochemistry, general Programming Techniques Algorithm Analysis and Problem Complexity Computation by Abstract Devices Data Structures Discrete Mathematics in Computer Science |
| Soggetto non controllato |
WABI
Algorithms Bioinformatics |
| ISBN | 3-540-30219-0 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Papers -- Reversing Gene Erosion – Reconstructing Ancestral Bacterial Genomes from Gene-Content and Order Data -- Reconstructing Ancestral Gene Orders Using Conserved Intervals -- Sorting by Reversals with Common Intervals -- A Polynomial-Time Algorithm for the Matching of Crossing Contact-Map Patterns -- A 1.5-Approximation Algorithm for Sorting by Transpositions and Transreversals -- Algorithms for Finding Maximal-Scoring Segment Sets -- Gapped Local Similarity Search with Provable Guarantees -- Monotone Scoring of Patterns with Mismatches -- Suboptimal Local Alignments Across Multiple Scoring Schemes -- A Faster Reliable Algorithm to Estimate the p-Value of the Multinomial llr Statistic -- Adding Hidden Nodes to Gene Networks -- Joint Analysis of DNA Copy Numbers and Gene Expression Levels -- Searching for Regulatory Elements of Alternative Splicing Events Using Phylogenetic Footprinting -- Supervised Learning-Aided Optimization of Expert-Driven Functional Protein Sequence Annotation -- Multiple Vector Seeds for Protein Alignment -- Solving the Protein Threading Problem by Lagrangian Relaxation -- Protein-Protein Interfaces: Recognition of Similar Spatial and Chemical Organizations -- ATDD: An Algorithmic Tool for Domain Discovery in Protein Sequences -- Local Search Heuristic for Rigid Protein Docking -- Sequence Database Compression for Peptide Identification from Tandem Mass Spectra -- Linear Reduction for Haplotype Inference -- A New Integer Programming Formulation for the Pure Parsimony Problem in Haplotype Analysis -- Fast Hare: A Fast Heuristic for Single Individual SNP Haplotype Reconstruction -- Approximation Algorithms for the Selection of Robust Tag SNPs -- The Minisatellite Transformation Problem Revisited: A Run Length Encoded Approach -- A Faster and More Space-Efficient Algorithm for Inferring Arc-Annotations of RNA Sequences Through Alignment -- New Algorithms for Multiple DNA Sequence Alignment -- Chaining Algorithms for Alignment of Draft Sequence -- Translation Initiation Sites Prediction with Mixture Gaussian Models -- Online Consensus and Agreement of Phylogenetic Trees -- Relation of Residues in the Variable Region of 16S rDNA Sequences and Their Relevance to Genus-Specificity -- Topological Rearrangements and Local Search Method for Tandem Duplication Trees -- Phylogenetic Super-networks from Partial Trees -- Genome Identification and Classification by Short Oligo Arrays -- Novel Tree Edit Operations for RNA Secondary Structure Comparison -- The Most Probable Labeling Problem in HMMs and Its Application to Bioinformatics -- Integrating Sample-Driven and Pattern-Driven Approaches in Motif Finding -- Finding Optimal Pairs of Patterns -- Finding Missing Patterns. |
| Record Nr. | UNINA-9910768471403321 |
| Berlin, Heidelberg : , : Springer Berlin Heidelberg : , : Imprint : Springer, , 2004 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Bioinformatics : (Oxford. Print)
| Bioinformatics : (Oxford. Print) |
| Pubbl/distr/stampa | Oxford, : Oxford University Press |
| Disciplina |
572.0285
570.285 |
| ISSN | 1367-4803 |
| Formato | Materiale a stampa |
| Livello bibliografico | Periodico |
| Lingua di pubblicazione | eng |
| Note periodicità | Mensile |
| Record Nr. | UNINA-990008918650403321 |
| Oxford, : Oxford University Press | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Bioinformatics and functional genomics / / Jonathan Pevsner
| Bioinformatics and functional genomics / / Jonathan Pevsner |
| Autore | Pevsner Jonathan <1961-> |
| Edizione | [2nd ed.] |
| Pubbl/distr/stampa | Hoboken, N.J., : Wiley-Blackwell, c2009 |
| Descrizione fisica | 1 online resource (990 p.) |
| Disciplina |
572.0285
572.8/6 572.86 |
| Soggetto topico |
Genomics
Bioinformatics Proteomics |
| ISBN |
1-118-68841-4
1-282-13736-0 9786612137365 0-470-45149-1 0-470-45148-3 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto | Access to sequence data and literature information -- Pairwise sequence alignment -- Basic local alignment search tool (BLAST) -- Advanced database searching -- Multiple sequence alignment -- Molecular phylogeny and evolution -- Bioinformatic approaches to ribonucleic acid (RNA) -- Gene expression : microarray data analysis -- Protein analysis and proteomics -- Protein structure -- Functional genomics -- Completed genomes -- Completed genomes : viruses -- Completed genomes : bacteria and archaea -- The eukaryotic chromosome -- Eukaryotic genomes : fungi -- Eukaryotic genomes : from parasites to primates -- Human genome -- Human disease. |
| Record Nr. | UNINA-9910146409603321 |
Pevsner Jonathan <1961->
|
||
| Hoboken, N.J., : Wiley-Blackwell, c2009 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Building bioinformatics solutions [[electronic resource] /] / Conrad Bessant, Ian Shadforth, Darren Oakley
| Building bioinformatics solutions [[electronic resource] /] / Conrad Bessant, Ian Shadforth, Darren Oakley |
| Autore | Bessant Conrad |
| Edizione | [2nd edition.] |
| Pubbl/distr/stampa | Oxford, : Oxford University Press, 2014 |
| Descrizione fisica | 1 online resource (368 pages) |
| Disciplina | 572.0285 |
| Soggetto topico |
Bioinformatics
Open source software Science |
| Soggetto genere / forma | Electronic books. |
| ISBN | 0-19-164319-X |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Record Nr. | UNINA-9910463889703321 |
|
Bessant Conrad
|
||
| Oxford, : Oxford University Press, 2014 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Building bioinformatics solutions [[electronic resource] /] / Conrad Bessant, Ian Shadforth, Darren Oakley
| Building bioinformatics solutions [[electronic resource] /] / Conrad Bessant, Ian Shadforth, Darren Oakley |
| Autore | Bessant Conrad |
| Edizione | [2nd edition.] |
| Pubbl/distr/stampa | Oxford, : Oxford University Press, 2014 |
| Descrizione fisica | 1 online resource (368 pages) |
| Disciplina | 572.0285 |
| Soggetto topico |
Bioinformatics
Open source software Science |
| Soggetto genere / forma | Electronic books. |
| ISBN |
0-19-164320-3
0-19-164319-X |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Record Nr. | UNINA-9910787877303321 |
|
Bessant Conrad
|
||
| Oxford, : Oxford University Press, 2014 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
Building bioinformatics solutions / / Conrad Bessant, Ian Shadforth, Darren Oakley
| Building bioinformatics solutions / / Conrad Bessant, Ian Shadforth, Darren Oakley |
| Autore | Bessant Conrad |
| Edizione | [2nd edition.] |
| Pubbl/distr/stampa | Oxford, : Oxford University Press, 2014 |
| Descrizione fisica | 1 online resource (368 pages) |
| Disciplina | 572.0285 |
| Soggetto topico |
Bioinformatics
Open source software Science |
| Soggetto genere / forma | Electronic books. |
| ISBN |
0-19-164320-3
0-19-164319-X |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
Cover -- Acknowledgements -- Preface to the Second Edition -- Contents -- 1 Introduction -- 1.1 From data to knowledge: the aim of bioinformatics -- 1.2 Using this book -- 1.2.1 About the coverage of this book -- 1.2.2 Choice of tools -- 1.2.3 Choice of operating system -- 1.2.4 www.bixsolutions.net -- 1.3 Principal applications of bioinformatics -- 1.3.1 Sequence analysis -- 1.3.2 Transcriptomics -- 1.3.3 Proteomics -- 1.3.4 Metabolomics -- 1.3.5 Systems biology -- 1.3.6 Literature mining -- 1.3.7 Structural biology -- 1.4 Building bioinformatics solutions -- 1.5 Publicly available bioinformatics resources -- 1.5.1 Publicly available data -- 1.5.2 Publicly available analysis tools -- 1.5.3 Publicly available workflow solutions -- 1.6 Some computing practicalities -- 1.6.1 Hardware requirements -- 1.6.2 The command line -- 1.6.3 Case sensitivity -- 1.6.4 Security, firewalls, and administration rights -- References -- 2 Building biological databases with SQL -- 2.1 Common database types -- 2.1.1 Flat text files -- 2.1.2 XML -- 2.1.3 Relational databases -- 2.2 Relational database design-the 'natural' approach -- 2.2.1 Steps 1-3: gather, group, and name the data -- 2.2.2 Step 4: data types -- 2.2.3 Step 5: atomicity of data -- 2.2.4 Steps 6 and 7: indexing and linking tables -- 2.2.5 Departure from design -- 2.3 Installing and configuring a MySQL server -- 2.3.1 Download and installation -- 2.3.2 Creating a database and a user account -- 2.4 Alternatives to MySQL -- 2.4.1 PostgreSQL -- 2.4.2 Oracle -- 2.4.3 MariaDB -- 2.4.4 Microsoft Access -- 2.4.5 Big Data and NoSQL databases -- 2.5 Database access using SQL -- 2.5.1 Compatibility between RDBMSs -- 2.5.2 Error messages -- 2.5.3 Creating a database -- 2.5.4 Creating tables and enforcing referential integrity -- 2.5.5 Populating the database -- 2.5.6 Removing data and tables from the database.
2.5.7 Creating and using source files -- 2.5.8 Querying the database -- 2.5.9 Transaction handling -- 2.5.10 Copying, moving, and backing up a database -- 2.6 MySQL Workbench: an alternative to the command line -- 2.7 Summary -- References -- 3 Beginning programming in Perl -- 3.1 Downloading and installing Perl -- 3.1.1 Older versions of Perl on Mac OS -- 3.1.2 Older versions of Perl on Linux -- 3.1.3 Installing Perl on Windows -- 3.1.4 Compilers and other developer tools -- 3.1.5 Before getting started -- 3.2 Basic Perl syntax and logic -- 3.2.1 Scalar variables -- 3.2.2 Arrays -- 3.2.3 Hashes -- 3.2.4 Control structures and logic operators -- 3.2.5 Writing interactive programs-I/O basics -- 3.2.6 Some good coding practice -- 3.2.7 Summary -- 3.3 References -- 3.3.1 Multidimensional arrays -- 3.3.2 Multidimensional hashes -- 3.3.3 Viewing data structures with Data::Dumper -- 3.4 Subroutines and modules -- 3.4.1 Making a Perl module -- 3.5 Regular expressions -- 3.5.1 Defining regular expressions -- 3.5.2 More advanced regular expressions -- 3.5.3 Regular expressions in practice -- 3.6 File handling and directory operations -- 3.6.1 Reading text files -- 3.6.2 Writing text files -- 3.6.3 Directory operations -- 3.7 Error handling -- 3.8 Retrieving files from the Internet -- 3.8.1 Utilizing NCBI's eUtilities -- 3.9 Accessing relational databases using Perl DBI -- 3.9.1 Installing DBD::MySQL -- 3.9.2 Connecting to a database -- 3.9.3 Querying the database -- 3.9.4 Populating the database -- 3.9.5 Database transactions and error handling -- 3.10 Harnessing existing tools -- 3.10.1 CPAN -- 3.10.2 BioPerl -- 3.10.3 System commands -- 3.11 Object-oriented programming -- 3.11.1 Object-oriented programming in Perl using Moose -- 3.12 Summary -- References -- 4 Analysis and visualisation of data using R -- 4.1 Introduction to R. 4.1.1 Downloading and installing R -- 4.1.2 Basic R concepts and syntax -- 4.1.3 Vectors and data frames -- 4.1.4 The nature of experimental data -- 4.1.5 R modes, objects, lists, classes, and methods -- 4.1.6 Importing data into R -- 4.1.7 Data visualization in R -- 4.1.8 Writing programs in R -- 4.1.9 Some essential R functions -- 4.1.10 The RStudio integrated development environment -- 4.2 Multivariate data analysis -- 4.2.1 Exploratory data analysis -- 4.2.2 Scatter plots -- 4.2.3 Principal components analysis -- 4.2.4 Hierarchical cluster analysis -- 4.2.5 Pattern recognition -- 4.3 R packages -- 4.3.1 Installing and using Bioconductor packages -- 4.3.2 The RMySQL package for database connectivity -- 4.3.3 Packages for multivariate classification -- 4.3.4 Writing your own R packages -- 4.4 Integrating Perl and R -- 4.5 Alternatives to R -- 4.5.1 S+ -- 4.5.2 Matlab -- 4.5.3 Octave -- 4.6 Summary -- References -- 5 Developing web resources -- 5.1 Web servers -- 5.2 Introduction to HTML -- 5.2.1 Creating and editing HTML documents -- 5.2.2 The structure of a web page -- 5.2.3 HTML tags and general formatting -- 5.2.4 An example web page -- 5.2.5 Web standards and browser compatibility -- 5.3 Programming for the web using Perl -- 5.3.1 Mojolicious::Lite -- 5.3.2 Debugging Mojolicious applications -- 5.3.3 Routes -- 5.3.4 Interfacing with databases within a web application -- 5.3.5 Getting user input via forms -- 5.3.6 Deploying a Mojolicious application -- 5.3.7 Going further with Mojolicious -- 5.4 Advanced web techniques and languages -- 5.4.1 Cascading stylesheets -- 5.4.2 JavaScript, JavaScript libraries, and Ajax -- 5.5 Data Visualization on the web -- 5.5.1 Using R graphics in Perl -- 5.5.2 Plotting graphs with Chart::Clicker -- 5.5.3 Plotting graphs with SVG::TT::Graph -- 5.5.4 Primitive graphics with Perl. 5.5.5 Drawing graphs and graphics using JavaScript -- 5.6 Summary -- References -- 6 Software engineering for bioinformatics -- 6.1 Unit testing -- 6.1.1 Unit testing in practice -- 6.2 Version control -- 6.2.1 The basics of version control -- 6.2.2 Centralized versus distributed version control -- 6.2.3 Git -- 6.2.4 Alternatives to Git -- 6.2.5 Hosting and sharing your code on the Internet -- 6.2.6 Running your own code repository -- 6.3 Creating useful documentation -- 6.3.1 Documenting command-line applications -- 6.3.2 Documenting Perl code -- 6.4 User-centred software design -- 6.5 Alternatives to Perl -- 6.5.1 Python -- 6.5.2 Ruby -- 6.5.3 Java -- 6.5.4 Using Galaxy -- 6.6 Summary -- References -- Appendix A: Using command-line interfaces -- A.1 Getting to the operating system command line -- A.2 General command-line concepts -- A.3 Command-line tips -- Appendix B: Getting started with Apache HTTP Server -- B.1 Installing Apache -- B.2 Apache fundamentals -- Appendix C: Setting up a Linux virtual machine in Windows -- C.1 Installing VirtualBox and configuring a virtual machine -- C.2 Using the VM -- C.3 Other uses of virtual machines -- Index. |
| Record Nr. | UNINA-9910825139103321 |
|
Bessant Conrad
|
||
| Oxford, : Oxford University Press, 2014 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
An introduction to computational biochemistry [[electronic resource] /] / C. Stan Tsai
| An introduction to computational biochemistry [[electronic resource] /] / C. Stan Tsai |
| Autore | Tsai C. Stan |
| Pubbl/distr/stampa | New York, : J. Wiley, c2002 |
| Descrizione fisica | 1 online resource (380 p.) |
| Disciplina |
572.0285
572/.0285 |
| Soggetto topico |
Biochemistry - Data processing
Biochemistry - Computer simulation Biochemistry - Mathematics |
| Soggetto genere / forma | Electronic books. |
| ISBN |
1-280-36663-X
9786610366637 0-470-35122-5 1-61344-244-0 0-471-46109-1 0-471-22384-0 |
| Formato | Materiale a stampa |
| Livello bibliografico | Monografia |
| Lingua di pubblicazione | eng |
| Nota di contenuto |
AN INTRODUCTION TO COMPUTATIONAL BIOCHEMISTRY; CONTENTS; Preface; 1 INTRODUCTION; 1.1. Biochemistry: Studies of Life at the Molecular Level; 1.2. Computer Science and Computational Sciences; 1.3. Computational Biochemistry: Application of Computer Technology to Biochemistry; References; 2 BIOCHEMICAL DATA: ANALYSIS AND MANAGEMENT; 2.1. Statistical Analysis of Biochemical Data; 2.2. Biochemical Data Analysis with Spreadsheet Application; 2.3. Biochemical Data Management with Database Program; 2.4. Workshops; References; 3 BIOCHEMICAL EXPLORATION: INTERNET RESOURCES
3.1. Introduction to Internet3.2. Internet Resources of Biochemical Interest; 3.3. Database Retrieval; 3.4. Workshops; References; 4 MOLECULAR GRAPHICS: VISUALIZATION OF BIOMOLECULES; 4.1. Introduction to Computer Graphics; 4.2. Representation of Molecular Structures; 4.3. Drawing and Display of Molecular Structures; 4.4. Workshops; References; 5 BIOCHEMICAL COMPOUNDS: STRUCTURE AND ANALYSIS; 5.1. Survey of Biomolecules; 5.2. Characterization of Biomolecular Structures; 5.3. Fitting and Search of Biomolecular Data and Information; 5.4. Workshops; References 6 DYNAMIC BIOCHEMISTRY: BIOMOLECULAR INTERACTIONS6.1. Biomacromolecule-Ligand Interactions; 6.2. Receptor Biochemistry and Signal Transduction; 6.3. Fitting of Binding Data and Search for Receptor Databases; 6.4. Workshops; References; 7 DYNAMIC BIOCHEMISTRY: ENZYME KINETICS; 7.1. Characterization of Enzymes; 7.2. Kinetics of Enzymatic Reactions; 7.3. Search and Analysis of Enzyme Data; 7.4. Workshops; References; 8 DYNAMIC BIOCHEMISTRY: METABOLIC SIMULATION; 8.1. Introduction to Metabolism; 8.2. Metabolic Control Analysis; 8.3. Metabolic Databases and Simulation; 8.4. Workshops; References 9 GENOMICS: NUCLEOTIDE SEQUENCES AND RECOMBINANT DNA9.1. Genome, DNA Sequence, and Transmission of Genetic Information; 9.2. Recombinant DNA Technology; 9.3. Nucleotide Sequence Analysis; 9.4. Workshops; References; 10 GENOMICS: GENE IDENTIFICATION; 10.1. Genome Information and Features; 10.2. Approaches to Gene Identification; 10.3. Gene Identification with Internet Resources; 10.4. Workshops; References; 11 PROTEOMICS: PROTEIN SEQUENCE ANALYSIS; 11.1. Protein Sequence: Information and Features; 11.2. Database Search and Sequence Alignment 11.3. Proteomic Analysis Using Internet Resources: Sequence and Alignment11.4. Workshops; References; 12 PROTEOMICS: PREDICTION OF PROTEIN STRUCTURES; 12.1. Prediction of Protein Secondary Structures from Sequences; 12.2. Protein Folding Problems and Functional Sites; 12.3. Proteomic Analysis Using Internet Resources: Structure and Function; 12.4. Workshops; References; 13 PHYLOGENETIC ANALYSIS; 13.1. Elements of Phylogeny; 13.2. Methods of Phylogenetic Analysis; 13.3. Application of Sequence Analyses in Phylogenetic Inference; 13.4. Workshops; References 14 MOLECULAR MODELING: MOLECULAR MECHANICS |
| Record Nr. | UNINA-9910143176303321 |
|
Tsai C. Stan
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||
| New York, : J. Wiley, c2002 | ||
| Materiale a stampa | ||
| Lo trovi qui: Univ. Federico II | ||
| ||
