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README.md

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#### GISC 422 T2 2023
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# GISC 422 Spatial Analysis and Modelling
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This class introduces key concepts and methods of spatial analysis. Practical deployment in the *R* statistical analysis software package is emphasised, although other tools will be surveyed.
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# Spatial Analysis and Modelling
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These pages outline a one semester (36 contact hours) class in spatial analysis and modelling that was last taught at Victoria University of Wellington as GISC 422 in the second half of 2023.
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<!--## COVID Alert level changes
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If COVID alert levels change, the class will continue as follows:
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+ **Level 1** Class as normal. Attendance in person preferred, streamed content will be available at the link posted on Blackboard. **Stay home if you are unwell**.
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+ **Level 2** Room entry must be recorded using COVID app and/or the sign-in sheet. Sanitise hands on entry and exit from the lab. Wipe down your workstation (keyboard, mouse) with wipes provided at start and end of session. And, since the sessions are 3 hours long, wear a mask. As at other levels class will be streamed and recorded for those unwilling or unable to attend. Above all **stay home if you are unwell**.
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+ **Level 3** or **Level 4** Class will be conducted solely over zoom with recordings available later for review.
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-->
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I am still in the process of cleaning the materials up for potential conversion into training materials. For the time being the materials are provided _gratis_ with no warrant as to their accuracy as a guide to spatial in _R_ but you may still find them useful all the same!
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## Link to related video content
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A consolidated list of relevant video content for this class is available on [this page](video-links.md).
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## Important dates
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Item | Dates
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-: | :-
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Trimester | 10 July to 9 November 2023
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Teaching period | 10 July to 13 October 2023
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Mid-trimester break | 21 August to 1 September 2023
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Last assessment item due (in this class) | TBA
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Study period | NA
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Examination period | NA
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Withdrawal dates | See [Course additions and withdrawals](www.victoria.ac.nz/home/admisenrol/payments/withdrawalsrefunds)
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If you cannot complete an assignment or sit a test or examination, refer to [Aegrotats](www.victoria.ac.nz/home/study/exams-and-assessments/aegrotat)
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## Lecture and lab schedule
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TBA
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<!--Lectures are in Cotton 110 at 9AM on Mondays and will be followed immediately by related lab sessions in the same location. The combined session will last up to three hours, finishing before noon.-->
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## Contact details
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### Lecturer/coordinator
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**Prof. [David O'Sullivan](mailto:david.osullivan@vuw.ac.nz)**
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**Office** CO227 **Extn.** 6492 **Office hours preferably by appointment** [click here](http://calendly.com/dosullivan) but direct message me on [the Slack](https://vuwgisc2021.slack.com) and we can arrange contact. The office phone system is not a good way to reach me.
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### GIS Technician
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NA
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<!--**[Andrew Rae](mailto:andrew.rae@vuw.ac.nz)**
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**Office** CO502 **Office hours** 1-3PM Mondays
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-->
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## Lab and lecture timetable
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Here's the trimester schedule we will aim to follow. **Bolded labs** have an associated assignment that must be submitted and contributes the indicated percentage of the course credit. General instructions for the labs are [here](labs/README.md). Relevant materials (lecture slides, lab scripts and datasets) are linked below, when available.
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Week# | Date | Lecture | Lab | Notes | [Videos](video-links.md)
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:-: | :-: | :-- | :-- | :-- | :--
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1 | 10 Jul | Course overview | [*R* and *RStudio* computing environment and Markdown documents](labs/intro-to-R-and-friends/README.md) | | [Practical](video-links.md#introducing-r-and-friends)
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2 | 17 Jul | [Why &lsquo;spatial is special&rsquo;](https://southosullivan.com/gisc422/spatial-is-special/) | [Making maps in *R*](labs/making-maps-in-r/README.md) | | [Lecture](video-links.md#lecture-on-spatial-is-special)<br />[Practical](video-links.md#practical-materials-on-making-maps-in-r)
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3 | 24 Jul | [Spatial processes](https://southosullivan.com/gisc422/spatial-processes/) | [Introducing `spatstat`](labs/introducing-spatstat/README.md) | | [Lecture](video-links.md#lecture-on-the-idea-of-a-spatial-process)<br />[Practical](video-links.md#practical-materials-on-spatial-processes)
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4 | 31 Jul | [Point pattern analysis](https://southosullivan.com/gisc422/point-pattern-analysis/) | [**Point pattern analysis**](labs/point-pattern-analysis/README.md) (15%) | Due 4 Sep | [Lecture](video-links.md#lecture-on-point-pattern-analysis)<br />[Practical](video-links.md#overview-of-lab-on-point-pattern-analysis)
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5 | 7 Aug | [Measuring spatial autocorrelation](https://southosullivan.com/gisc422/spatial-autocorrelation/) | [**Moran's *I***](labs/spatial-autocorrelation/README.md) (15%) | Due 11 Sep | [Lecture](video-links.md#lecture-on-spatial-autocorrelation)<br />[Practical](video-links.md#overview-of-lab-on-spatial-autocorrelation)
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6 | 14 Aug | [Spatial interpolation](https://southosullivan.com/gisc422/interpolation/) | ['Simple' interpolation in R](labs/interpolation/README.md) | | [Lecture](video-links.md#lecture-on-simple-interpolation-methods)
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| | **SEMESTER BREAK** | **NO TEACHING**
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7 | 4 Sep | [Geostatistics](https://southosullivan.com/gisc422/geostatistics/) | [**Interpolation**](labs/interpolation/README.md) (15%) | Due 25 Sep | [Lecture](video-links.md#lecture-on-geostatistical-methods)
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8 | 11 Sep | Multivariate methods | [**Geodemographics**](labs/multivariate-analysis/README.md) (15%)| Due 9 Oct | [Lecture](video-links.md#week-9-multivariate-analysis)
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9 | 18 Sep | Overlay, regression models and related methods | [Lab content](labs/statistical-models/README.md) |
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10 | 25 Sep | [Cluster detection](https://southosullivan.com/gisc422/cluster-detection/) | TBD |
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11 | 2 Oct | [Network analysis](https://southosullivan.com/gisc422/network-analysis/) | [Tools for network analysis](labs/network-analysis/README.md)
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12 | 9 Oct | TBD | TBD
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## Lectures
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NA
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Here's a 12 week schedule schedule we will aim to follow. **Bolded labs** have an associated assignment that must be submitted and contributes the indicated percentage of the course credit. General instructions for the labs are [here](labs/README.md). Relevant materials (lecture slides, lab scripts and datasets) are linked below, when available.
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Week# | Lecture | Lab | [Videos](video-links.md)
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:-: | :-- | :-- | :--
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1 | Course overview | [*R* and *RStudio* computing environment and Markdown documents](labs/intro-to-R-and-friends/README.md) | [Practical](video-links.md#introducing-r-and-friends)
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2 | [Why &lsquo;spatial is special&rsquo;](https://southosullivan.com/gisc422/spatial-is-special/) | [Making maps in *R*](labs/making-maps-in-r/README.md) | [Lecture](video-links.md#lecture-on-spatial-is-special)<br />[Practical](video-links.md#practical-materials-on-making-maps-in-r)
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3 | [Spatial processes](https://southosullivan.com/gisc422/spatial-processes/) | [Introducing `spatstat`](labs/introducing-spatstat/README.md) | [Lecture](video-links.md#lecture-on-the-idea-of-a-spatial-process)<br />[Practical](video-links.md#practical-materials-on-spatial-processes)
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4 | [Point pattern analysis](https://southosullivan.com/gisc422/point-pattern-analysis/) | [**Point pattern analysis**](labs/point-pattern-analysis/README.md) (15%) | [Lecture](video-links.md#lecture-on-point-pattern-analysis)<br />[Practical](video-links.md#overview-of-lab-on-point-pattern-analysis)
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5 | [Measuring spatial autocorrelation](https://southosullivan.com/gisc422/spatial-autocorrelation/) | [**Moran's *I***](labs/spatial-autocorrelation/README.md) (15%) | [Lecture](video-links.md#lecture-on-spatial-autocorrelation)<br />[Practical](video-links.md#overview-of-lab-on-spatial-autocorrelation)
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6 | [Spatial interpolation](https://southosullivan.com/gisc422/interpolation/) | ['Simple' interpolation in R](labs/interpolation/README.md) | [Lecture](video-links.md#lecture-on-simple-interpolation-methods)
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7 | [Geostatistics](https://southosullivan.com/gisc422/geostatistics/) | [**Interpolation**](labs/interpolation/README.md) (15%) | [Lecture](video-links.md#lecture-on-geostatistical-methods)
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8 | Multivariate methods | [**Geodemographics**](labs/multivariate-analysis/README.md) (15%) | [Lecture](video-links.md#week-9-multivariate-analysis)
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9 | Overlay, regression models and related methods | [Lab content](labs/statistical-models/README.md) |
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10 | [Cluster detection](https://southosullivan.com/gisc422/cluster-detection/) | |
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11 | [Network analysis](https://southosullivan.com/gisc422/network-analysis/) | [Tools for network analysis](labs/network-analysis/README.md)
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### Readings
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The most useful materials are
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+ Bivand R, Pebesma E and Gómez-Rubilio V. 2013. [*Applied Spatial Data Analysis with R*](https://link-springer-com.helicon.vuw.ac.nz/book/10.1007%2F978-1-4614-7618-4) 2nd edn. Springer, New York.
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+ O'Sullivan D and D Unwin. 2010. [*Geographic Information Analysis*](http://www.wiley.com/WileyCDA/WileyTitle/productCd-0470288574.html) 2nd edn. Wiley, Hoboken, NJ.
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The first of these is freely available as a full PDF download from the library, so where possible I will emphasise materials in that book.
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I wrote the second book and will provide pre-publication manuscript chapters where needed.
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A third book:
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+ Brunsdon C and L Comber. 2019. [*An Introduction to R for Spatial Analysis and Mapping*](https://au.sagepub.com/en-gb/oce/an-introduction-to-r-for-spatial-analysis-and-mapping/book258267 "Brunsdon and Comber Introduction to R book") 2nd edn. Sage, London.
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is more recent and is reasonably affordable, so you might consider purchasing it as a general reference and reminder of topics covered in the class.
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+ Brunsdon C and L Comber. 2019. [*An Introduction to R for Spatial Analysis and Mapping*](https://au.sagepub.com/en-gb/oce/an-introduction-to-r-for-spatial-analysis-and-mapping/book258267 "Brunsdon and Comber Introduction to R book") 2nd edn. Sage, London.
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There are also many useful online resources that cover topics that are the subject of this class. For example:
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For the final assignment you will need to do your own research and assemble materials concerning how spatial analysis has been applied in specific areas of study.
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## Labs
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NA
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<!--Lab sessions follow the lecture sessions and will cover related practical topics. Lab materials will generally be found [here](labs/). Only four sessions have an associated assessed assignment, but you should attend all labs and particpate fully to broaden your knowledge of GIScience methods and tools as any of the approaches covered may prove useful for you in other parts of the program. (Note also that a portion of the course credit is for participation in all aspects of the course.)-->
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### Software
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Most of the lab work will be completed in the [*R*](https://www.r-project.org/) programming language for statistical computing, using various packages tailored to spatial analysis work. *R*
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We will use *R* from the [*RStudio*](https://www.rstudio.com/) environment which makes managing work more straightforward.
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We will use *R* from the [*RStudio*](https://posit.co/) environment which makes managing work more straightforward.
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Both *R* and *RStudio* are freely downloadable for use on your own computer (they work on all three major platforms). I can take a look if you are having issues with your installation, but are likely to suggest that you uninstall and reinstall. <!--In some cases problems might arise from different versions of key packages, in which case you will have to work with the lab machine versions as we can't support multiple versions across different platforms.-->
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Both *R* and *RStudio* are freely downloadable for use on your own computer (they work on all three major platforms). I can take a look if you are having issues with your installation, but are likely to suggest that you uninstall and reinstall.
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## Course learning objectives (CLOs)
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1. Articulate the theoretical and practical considerations in the application of spatial analysis methods and spatial modelling
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Participation (including non-assessed labs) | 10% | NA | 1 2 3 4
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Some guidance on the written report assignment expectations is provided [here](report/README.md).
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Assessments to be submitted by email. I will aim to return coursework within 3 weeks. <!--Extensions should be requested from the SGEES administration office. If you anticipate problems come and talk to me.-->
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<!--### Late submission penalties
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All assignments must be handed in by their due dates. Non-submission by the required date will result in a 5% penalty off your grade for that assignment for each day or part thereof that the coursework is late. No submissions will be accepted more than 5 days after the due date.
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Computer crash or similar excuses are not acceptable. Save your material and make sure you have something to submit by the due date.
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### Non-assessed lab work
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Note that there are also non-assessed lab sessions. These will be important for your ability to complete the final assignment effectively and to your all-around training in GIScience, so it is vital that you take them seriously as part of the course.
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## Additional information
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The primary mode of communication for the course will be via Blackboard, so please ensure that your contact details there are up to date and are regularly checked (note that Blackboard defaults to your myvuw email address).
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### Class representatives
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A volunteer is need to act as class representative. If you are interested let me know. Further information about the role is available [here](https://www.vuwsa.org.nz/class-representatives/).
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### Other useful resources
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+ [Academic Integrity and Plagiarism](https://www.wgtn.ac.nz/home/study/plagiarism)
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+ [Aegrotats](https://www.wgtn.ac.nz/home/study/exams-and-assessments/aegrotat)
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+ [Academic Progress](https://www.wgtn.ac.nz/home/study/academic-progress) (including restrictions and non-engagement)
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+ [Dates and deadlines](https://www.wgtn.ac.nz/home/study/dates)
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+ [Grades](https://www.wgtn.ac.nz/home/study/exams-and-assessments/grades)
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+ [Resolving academic issues](https://www.wgtn.ac.nz/home/about/avcacademic/publications2#grievances)
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+ [Special passes](https://www.wgtn.ac.nz/home/about/avcacademic/publications2#specialpass)
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+ [Statutes and policies including the Student Conduct Statute](https://www.wgtn.ac.nz/home/about/policy)
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+ [Student support](https://www.wgtn.ac.nz/home/viclife/studentservice)
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+ [Students with disabilities](https://www.wgtn.ac.nz/st_services/disability)
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+ [Student Charter](https://www.wgtn.ac.nz/learning-teaching/partnership/student-charter)
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+ [Student Contract](https://www.wgtn.ac.nz/home/admisenrol/enrol/studentcontract)
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+ [Turnitin](http://www.cad.vuw.ac.nz/wiki/Turnitin.html)
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+ [VUWSA](https://www.vuwsa.org.nz)
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-->

labs/README.md

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#### GISC 422 T1 2020
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# General instructions for labs
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Each week there will be a practical component. Not every week is assessed, but you will learn a lot more if you work on the materials every week.
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labs/interpolation/01-overview-of-the-approach.Rmd

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#### GISC 422 T2 2023
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# The overall approach to interpolation
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The *R* ecosystem's approach to spatial interpolation seems pretty complicated at first. It's not exactly simple, although the overall concept is straightforward enough and some of the apparent complexity has more to do with making different data types interact with one another successfully.

labs/interpolation/01-overview-of-the-approach.md

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#### GISC 422 T2 2023
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# The overall approach to interpolation
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The *R* ecosystem's approach to spatial interpolation seems pretty complicated at first. It's not exactly simple, although the overall concept is straightforward enough and some of the apparent complexity has more to do with making different data types interact with one another successfully.

labs/interpolation/02-example-dataset.Rmd

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#### GISC 422 T2 2023
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# Basics of working with raster data
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First load some libraries
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labs/interpolation/02-example-dataset.md

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#### GISC 422 T2 2023
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# Basics of working with raster data
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First load some libraries
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labs/interpolation/03-preparing-for-interpolation.Rmd

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#### GISC 422 T2 2023
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# Preparing for interpolation
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Run this first to make sure all the data and packages you need are loaded:

labs/interpolation/03-preparing-for-interpolation.md

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#### GISC 422 T2 2023
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# Preparing for interpolation
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Run this first to make sure all the data and packages you need are loaded:

labs/interpolation/04-nn-and-idw.Rmd

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#### GISC 422 T2 2023
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# Near neighbour and inverse-distance weighted interpolation
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Run this first to make sure all the data and packages you need are loaded. If any data are missing you probably didn't make them in one of the previous instruction pages.
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labs/interpolation/04-nn-and-idw.md

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#### GISC 422 T2 2023
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# Near neighbour and inverse-distance weighted interpolation
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Run this first to make sure all the data and packages you need are loaded. If any data are missing you probably didn't make them in one of the previous instruction pages.
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