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Beginning Perl For Bioinformatics

Author: James Tisdall
Publisher: "O'Reilly Media, Inc."
ISBN: 9780596550479
Size: 11.83 MB
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With its highly developed capacity to detect patterns in data, Perl has become one of the most popular languages for biological data analysis. But if you're a biologist with little or no programming experience, starting out in Perl can be a challenge. Many biologists have a difficult time learning how to apply the language to bioinformatics. The most popular Perl programming books are often too theoretical and too focused on computer science for a non-programming biologist who needs to solve very specific problems.Beginning Perl for Bioinformatics is designed to get you quickly over the Perl language barrier by approaching programming as an important new laboratory skill, revealing Perl programs and techniques that are immediately useful in the lab. Each chapter focuses on solving a particular bioinformatics problem or class of problems, starting with the simplest and increasing in complexity as the book progresses. Each chapter includes programming exercises and teaches bioinformatics by showing and modifying programs that deal with various kinds of practical biological problems. By the end of the book you'll have a solid understanding of Perl basics, a collection of programs for such tasks as parsing BLAST and GenBank, and the skills to take on more advanced bioinformatics programming. Some of the later chapters focus in greater detail on specific bioinformatics topics. This book is suitable for use as a classroom textbook, for self-study, and as a reference.The book covers: Programming basics and working with DNA sequences and strings Debugging your code Simulating gene mutations using random number generators Regular expressions and finding motifs in data Arrays, hashes, and relational databases Regular expressions and restriction maps Using Perl to parse PDB records, annotations in GenBank, and BLAST output

Einf Hrung In Perl

Author: Randal L. Schwartz
Publisher: O'Reilly Germany
ISBN: 386899145X
Size: 13.49 MB
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Perl ist eine Skriptsprache zur einfachen Bearbeitung von Texten, Dateien und Prozessen. Ursprunglich ein beliebtes Werkzeug von Unix-Systemadministratoren fur die zahllosen alltaglichen Aufgaben hat sich Perl zu einer ausgewachsenen Programmiersprache fur nahezu jede Rechnerplattform entwickelt und wird fur Web- und Datenbank-Programmierung, XML-Verarbeitung, Systemadministration und vieles mehr eingesetzt. Das Schweizer Messer der Programmiersprachen Gleichzeitig ist Perl immer noch das Schweizer Messer fur die kleinen alltaglichen Aufgaben. Perl ist schnell, macht Spa und erweist sich als auerordentlich nutzlich. Viele haben Perl gelernt, weil sie mussten, und benutzen es weiter, weil sie es lieben. Fur Einsteiger Einfuhrung in Perl ist ein sorgfaltig abgestimmter Kurs fur Einsteiger von drei der erfahrensten Perl-Dozenten. Mit vielen Programmierbeispielen sowie Ubungen und ausgearbeiteten Losungen zu jedem Thema zeigen die Autoren Schritt fur Schritt, wie man mit Perl, Version 5.14, programmiert. Ideal fur Systemadministoren und Programmierer Einfuhrung in Perl ist das ideale Buch fur Systemadministratoren und Programmierer, die schon nach kurzer Zeit einsetzbare Perl-Skripten schreiben wollen.

Mastering Perl For Bioinformatics

Author: James Tisdall
Publisher: "O'Reilly Media, Inc."
ISBN: 9781449390907
Size: 44.32 MB
Format: PDF
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Historically, programming hasn't been considered a critical skill for biologists. But now, with access to vast amounts of biological data contained in public databases, programming skills are increasingly in strong demand in biology research and development. Perl, with its highly developed capacities in string handling, text processing, networking, and rapid prototyping, has emerged as the programming language of choice for biological data analysis.Mastering Perl for Bioinformatics covers the core Perl language and many of its module extensions, presenting them in the context of biological data and problems of pressing interest to the biological community. This book, along with Beginning Perl for Bioinformatics, forms a basic course in Perl programming. This second volume finishes the basic Perl tutorial material (references, complex data structures, object-oriented programming, use of modules--all presented in a biological context) and presents some advanced topics of considerable interest in bioinformatics.The range of topics covered in Mastering Perl for Bioinformatics prepares the reader for enduring and emerging developments in critical areas of bioinformatics programming such as: Gene finding String alignment Methods of data storage and retrieval (SML and databases) Modeling of networks (graphs and Petri nets) Graphics (Tk) Parallelization Interfacing with other programming languages Statistics (PDL) Protein structure determination Biological models of computation (DNA Computers) Biologists and computer scientists who have conquered the basics of Perl and are ready to move even further in their mastery of this versatile language will appreciate the author's well-balanced approach to applying Perl's analytical abilities to the field of bioinformatics. Full of practical examples and real-world biological problem solving, this book is a must for any reader wanting to move beyond beginner level Perl in bioinformatics.

Programmieren Mit Perl

Author: Larry Wall
Publisher: O'Reilly Verlag DE
ISBN: 9783897211445
Size: 74.81 MB
Format: PDF
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Programmieren mit Perl ist die Übersetzung der 2. Auflage von Programming Perl, der anerkannten Perl-Bibel. Perl selbst ist die erste von Larry Wall geschaffene Legende, dieses Buch (überall liebevoll nur das "Kamel-Buch" genannt) ist die zweite. Gemeinsam mit anderen Perl-Experten lüftet Wall die vielen neuen Geheimnisse der Version 5 von Perl, liefert dabei gleichzeitig aber auch neue Einsichten in die alten und erprobten Features. Perl ist zur ungekrönten Königin der Programmiersprachen herangewachsen und wird zunehmend als die nützlichste Sprache angesehen, wenn es darum geht, eine Vielzahl von Aufgaben über viele Plattformen hinweg und so portabel wie möglich zu erledigen. Nicht mehr zufrieden damit, nur die Unix-Umgebung zu dominieren, zog Perl aus, nun auch noch die Web- Programmierung zu beherrschen. Programmieren mit Perl enthält unter anderem: Eine ausführliche Einführung in die Sprache und ihre Syntax; eine vollständige Referenz aller Perl-Funktionen, Perl-Operationen und Standard-Bibliotheksmodule; eine Erläuterung der Perl-Referenzen und komplexen Datenstrukturen; eine detaillierte Darstellung der objektorientierten Eigenschaften von Perl; weiterführende Themen wie Effizienz, Debugging, Aufrufoptionen, Sicherheit von Programmen, Interprozesskommunikation, Autoloading und vieles mehr.

Perl Programming For Bioinformatics

Author: Harshawardhan P. Bal
Publisher: Tata McGraw-Hill Education
ISBN: 9780070474475
Size: 52.15 MB
Format: PDF, ePub
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This book introduces Bioinformatics and its tools and techniques to a new hybrid professional the biologist and the would-be informatician and encourages to use this vast and powerful resource to address biological problems.

Bioinformatics For Geneticists

Author: Michael R. Barnes
Publisher: John Wiley & Sons
ISBN: 0470026197
Size: 48.55 MB
Format: PDF, ePub
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Bioinformatics for geneticists describes the key bioinformatics and genetic analysis processes that are needed to identify human genetic determinants. Including SNP functional analysis and statistical genetics.

Genomic Perl

Author: Rex A. Dwyer
Publisher: Cambridge University Press
ISBN: 9780521801775
Size: 51.73 MB
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This introduction to computational molecular biology will help programmers and biologists learn the skills needed to start work in this important, expanding field. The author explains many of the basic computational problems and gives concise, working programs to solve them in the Perl programming language. With minimal prerequisites, the author explains the biological background for each problem, develops a model for the solution, then introduces the Perl concepts needed to implement the solution. The book covers pairwise and multiple sequence alignment, fast database searches for homologous sequences, protein motif identification, genome rearrangement, physical mapping, phylogeny reconstruction, satellite identification, sequence assembly, gene finding, and RNA secondary structure. The concrete examples and step-by-step approach make it easy to grasp the computational and statistical methods, including dynamic programming, branch-and-bound optimization, greedy methods, maximum likelihood methods, substitution matrices, BLAST searching, and Karlin-Altschul statistics. Perl code is provided on the accompanying CD.