Open Educational Resources: Textbooks and Related Materials

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  Statistical Computing Using R and Python

  Susan VanderPlas

  This book is designed to explain and demonstrate statistical programming concepts and techniques. I started this project in Summer 2020 as a less-tedious way to learn programming compared to hours and hours of video lectures. I’ve always found that watching someone code and talk about code is not usually the best way to learn how to code. It’s far better to learn how to code by … coding, but it’s hard to start from nothing, too.

  Because this book was begun as an alternative to recorded lectures with slides, I have included all of the comics, snark, and gifs that I would normally have put in lecture slides. I’ve also supplemented this with other things that you can’t usually put in slide presentations: YouTube videos, extra resources, links to other textbooks that are more specific than this one. My goal is to make this a collection of the best information I can find on data science and statistical programming.

  There is a downside to this approach: in most cases, this book includes way more information than you need. Everyone starts with a different level of computing experience, so I’ve attempted to make this book comprehensive. Unfortunately, that means some sections will seem like they are stating the obvious, and some sections will have more detail than you ever wanted to know. Use this book in the way that works best for you - skip over the stuff you know already, ignore the stuff that seems too complex until you understand the basics. Come back to the scary stuff later and see if it makes more sense to you.

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  Concepts in Animal Parasitology

  Scott L. Gardner and Sue Ann Gardner

  This is a textbook covering concepts in animal parasitology. It is meant to be used by students, teachers, professors, researchers, and members of the public who are interested in learning about animal parasite biology, systematics, taxonomy, zoogeography, and ecology. The primary intended audience is upper-level undergraduate or graduate university students who have knowledge of basic biology and, particularly, basic animal biology. (863 pages, illustrated)

  One of the most fascinating things that a person can experience in the complex realm of biology is the discovery of an animal living inside another animal. If this discovery takes place at an early enough stage in the development of a young person’s view of the world, that is, before the rules and regulations of what of society thinks, and before what is good and what is bad are perfused into a learner’s mind, the first discovery of living-motile trematode worms living inside the lungs of a frog or of tapeworms inhabiting the gut of a rodent can be exhilarating and a positively unforgettable experience. The questions that arise when these kinds of animals are encountered for the first time are innumerable and, if answered carefully and perhaps fully, may lead to more and more questions, and hopefully, more and more answers.

  Contents:

  Preface

  List of Contributors

  INTRODUCTORY CONCEPTS

  Part I: INTRODUCTORY CONCEPTS

  Introductory Concepts
  1: Introduction to Animal Parasitology
  2: Phylogenetic Systematics in Parasitology
  3: Helminth Identification and Diagnostics: Basic Molecular Techniques

  Parasites in Relation to Other Organisms
  4: Hosts, Reservoirs, and Vectors
  5: Life Cycles
  6: Behavioral Parasitology

  Parascript Approaches
  7: Biostatistics for Parasitologists: A Painless Introduction
  8: Distributional Ecology of Parasites

  ENDOPARASITES

  Part II: PROTOZOA, MYXOZOA, MESOZOA

  Protozoa

  Apicomplexa
  9: The Coccidia Proper: Important Apicomplexa Other than Haemoprotozoa
  10: Haemosporida (Order): The “Malaria Parasites”

  Trypanosomatidae
  11: Trypanosoma (Genus)
  12: Leishmania (Genus) and Leishmaniasis

  Myxozoa
  13: Myxozoa (Subphylum)

  Mesozoa
  14: Mesozoa (Phylum Dicyemida and Phylum Orthonecta)

  Part III: ENDOPARASITIC PLATYHELMINTHS

  Platyhelminthes
  15: Introduction to Endoparasitic Platyhelminths (Phylum Platyhelminthes)

  Cestoda
  16: Introduction to Cestodes (Class Cestoda)

  Eucestoda
  17: Cyclophyllidea Beneden in Braun, 1900 (Order)
  18: Taenia (Genus)
  19: Echinococcus (Genus)
  20: Proteocephalidae La Rue, 1911 (Family)
  21: Bothriocephalidea Kuchta et al., 2008 (Order)
  22: Diphyllobothriidea Kuchta et al., 2008 (Order): The Broad Tapeworms
  23: Trypanorhyncha Diesing, 1863 (Order)
  24: Cathetocephalidea Schmidt and Beveridge, 1990 (Order)
  25: Diphyllidea van Beneden in Carus, 1863 (Order)
  26: Lecanicephalidea Hyman, 1951 (Order)
  27: Litobothriidea Dailey, 1969 (Order)
  28: Phyllobothriidea Caira et al., 2014 (Order)
  29: Rhinebothriidea Healy et al., 2009 (Order)
  30: Relics of “Tetraphyllidea” van Beneden, 1850 (Order)

  Amphilinidea
  31: Amphilinidea Poche 1922 (Order)

  Gyrocotylidea
  32: Gyrocotylidea (Order): The Most Primitive Group of Tapeworms

  Trematoda

  Aspidogastrea
  33: Aspidogastrea (Subclass)

  Digenea

  Diplostomida
  34: Introduction to Diplostomida Olson et al., 2003 (Order)
  35: Aporocotylidae (Family): Fish Blood Flukes

  Plagiorchiida
  36: Introduction to Plagiorchiida La Rue, 1957 (Order)
  37: Bivesiculata Olson et al., 2003 (Suborder): Small, Rare, but Important
  38: Echinostomata La Rue, 1926 (Suborder)
  39: Haplosplanchnata Olson et al., 2003 (Suborder): Two Hosts with Half the Guts
  40: Hemiurata Skrjabin & Guschanskaja, 1954 (Suborder)
  41: Monorchiata Olson et al., 2003 (Suborder): Two Families Separated by Salinity
  42: Opisthorchis (Genus)

  Xiphidiata
  43: Allocreadiidae Looss, 1902 (Family)
  44: Haematoloechidae Odening, 1964 (Family)
  45: Lecithodendriidae Lühe, 1901 (Family)
  46: Opecoelidae Ozaki, 1925 (Family): The Richest Trematode Family

  Digenea, Summary
  47: Summary of the Digenea (Subclass): Insights and Lessons from a Prominent Parasitologist

  Part IV: NEMATA, NEMATOMORPHA, ACANTHOCEPHALA, PENTASTOMIDA

  Nemata
  48: Introduction to Endoparasitic Nematodes (Phylum Nemata)
  49: Trichuroidea and Trichinelloidea (Superfamilies)
  50: Ascarididae and Anisakidae (Families): Large Intestinal Nematodes
  51: Heterakoidea (Superfamily): Cosmopolitan Gut-Dwelling Parasites of Tetrapods
  52: Oxyurida (Order): Pinworms
  53: Spirurida (Order)
  54: Camallanina (Suborder): Guinea Worm and Related Nematodes
  55: Filarioidea Weinland, 1858 (Superfamily)
  56: Strongyloidea Baird, 1853 and Trichostrongyloidea Cram, 1927 (Superfamilies): Bursate Nematodes

  Nematomorpha
  57: Nematomorpha (Phylum): Horsehair Worms

  Acanthocephala
  58: Acanthocephala (Phylum)

  Pentastomida
  59: Pentastomida: Endoparasitic Arthopods

  ECTOPARASITES

  Part V: ECTOPARASITES

  Platyhelminthes
  60: Monogenea van Beneden, 1858 (Class)
  61: Transversotrematidae Witenberg, 1944 (Family): Ectoparasitic Trematodes

  Hirudinea
  62: Hirudinea (Subclass): Parasitic Leeches

  Arthropoda
  63: Siphonaptera Latreille, 1825 (Order): Fleas
  64: Phthiraptera (Order): Lice
  65: Triatominae Jeannel, 1919 (Subfamily): Kissing Bugs
  66: Ixodida Leach, 1815 (Order): Ticks
  67: Acari Leach, 1817 (Subclass): Mites

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  Mathematics: PreCalculus Mathematics at Nebraska

  Josh Brummer, Taran Funk, Ariel Setniker, Karina Uhing, Nathan Wakefield, and Catherine Zimmitti

  Mathematics, as we all know, is the language of science, and fluency in algebraic skills has always been necessary for anyone aspiring to disciplines based on calculus. But in the information age, increasingly sophisticated mathematical methods are used in all fields of knowledge, from archaeology to zoology. Consequently, there is a new focus on the courses before calculus. The availability of calculators and computers allows students to tackle complex problems involving real data, but requires more attention to analysis and interpretation of results. All students, not just those headed for science and engineering, should develop a mathematical viewpoint, including critical thinking, problem-solving strategies, and estimation, in addition to computational skills. Modeling, Functions and Graphs employs a variety of applications to motivate mathematical thinking.

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  Irrigation Systems Management

  Dean E. Eisenhauer, Derrel L. Martin, Derek M. Heeren, and Glenn J. Hoffman

  Like most textbooks, this book grew out of our desire to have written material that matches the educational needs of both the students and the instructor of a college course, in this case a course entitled Irrigation Systems Management. The book is the culmination of course notes which have been in development and use for nearly 30 years.

  The emphasis of this book is on the management of irrigation systems that are used for agricultural crop production. There are two distinct components of the book, starting with the soil-water-plant-atmosphere system and how soil water should be managed to achieve the desired crop production outcomes. This includes in-depth presentations on soil water storage and movement, plant water use, managing the soil water reservoir through irrigation scheduling, and salinity management. The book then shifts to the second component, which is the description and management of the various forms of agricultural irrigation systems along with their water supply. Whether it be a surface, sprinkler, or microirrigation system, the irrigation manager must not only know how much water to apply but also how to manage the system itself to achieve efficient application. High application efficiency can only be realized by minimizing runoff, deep percolation, evaporation, and drift onto non-target areas. Since energy costs are an integral part of the management equation, one chapter in the book deals with the hydraulics and energy requirements of pumping and distributing water. One of the key themes spread throughout the book is providing guidance to irrigation managers on how to improve irrigation water productivity (production per unit of irrigation water) and minimize water resource contamination.

  Our goal is for the reader to understand the complexities of irrigation systems and how they are to be managed to meet the water needs of the crop production system. This is not an irrigation engineering design book; we have purposely minimized the presentation of design steps and the supporting equations. The intended audience of the book is upper-level undergraduate students and graduate students who are pursuing degrees in Agricultural or Natural Resource Sciences. Example majors include Agricultural Systems Technology, Agronomy, Crop Science, Mechanized Systems Management (or equivalent), Natural Resources Management, Soil Science, and Water Science. We expect the reader to have a basic understanding of soils, crops, physics, and the application of algebraic equations. We have also tried to add enough advanced material to challenge graduate students when the book is used in courses that are taught simultaneously at the undergraduate and graduate level. We hope the book will match the needs of students who plan to work in irrigation and related industries, university extension and outreach, private consulting, government service, or production agriculture and that it will continue to serve as a useful reference to them following completion of their formal education.