Gotwals Outreach

Course Modules

Rice Genomics Curricular Materials (Syngenta)

Rice Genomics Curricular Materials (Syngenta) Rice Genomics Curricular Materials (Syngenta)

Page

Plant Genomics: About these materials Plant Genomics: About these materials 1

wiki_page 462405 0

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Context Module Sub Header

Main Documents 2

context_module_sub_header 510505 0

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Attachment

ComputingTheRiceGenomeFullVersion.pdf ComputingTheRiceGenomeFullVersion.pdf 3

attachment 531063 0

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Context Module Sub Header

Quantitative Trait Loci (QTL) Materials 6

context_module_sub_header 474213 0

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Attachment

Rice Quantitative Trait Loci (QTL)_ An Annotated Guide.pdf Rice Quantitative Trait Loci (QTL)_ An Annotated Guide.pdf 7

attachment 474297 0

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External Url

Using RStudio Cloud for QTL Using RStudio Cloud for QTL 8

external_url 474259 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

RiceQTL.R RiceQTL.R 9

attachment 474216 0

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Context Module Sub Header

Genome-Wide Association Study (GWAS) Materials 10

context_module_sub_header 510507 0

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Attachment

Rice Genome Wide Area Association Studies (GWAS)_ An Annotated Guide.pdf Rice Genome Wide Area Association Studies (GWAS)_ An Annotated Guide.pdf 11

attachment 510510 0

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Attachment

RiceGWAS.Rmd RiceGWAS.Rmd 12

attachment 510509 0

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Attachment

RiceGWASDataAnalysis.Rmd RiceGWASDataAnalysis.Rmd 13

attachment 510508 0

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Context Module Sub Header

Useful Resources 14

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External Url

Rice Articles Rice Articles 15

external_url 474215 0

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External Url

Gramene (comparative plant genomics) Gramene (comparative plant genomics) 16

external_url 462408 0

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External Url

Gramene Archive Gramene Archive 17

external_url 462410 0

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External Url

Oryza Sativa genome Oryza Sativa genome 18

external_url 462409 0

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External Url

International Rice Genome Sequencing Project International Rice Genome Sequencing Project 19

external_url 462413 0

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Nemeth (Math) Braille Short Course (under development)

Nemeth (Math) Braille Short Course (under development) Nemeth (Math) Braille Short Course (under development)

External Url

APH Nemeth Tutorial APH Nemeth Tutorial 1

external_url 514317 0

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Context Module Sub Header

Sessions 2

context_module_sub_header 512366 0

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Context Module Sub Header

Session 1: Nemeth Code Basics 3

context_module_sub_header 512358 0

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Context Module Sub Header

Quizzes 4

context_module_sub_header 514062 0

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Quiz

Session 1 Writing Exercise Session 1 Writing Exercise 2 5

quiz 514223 1

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Context Module Sub Header

Session 2: Alphabets 6

context_module_sub_header 512359 0

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Context Module Sub Header

Session 3: Groupings 7

context_module_sub_header 512360 0

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Context Module Sub Header

Session 4: Fractions, Fraction Indicators and Roman Numerals 8

context_module_sub_header 512361 0

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Context Module Sub Header

Session 5: Shapes, Arrows and Other Graphics 9

context_module_sub_header 512362 0

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Context Module Sub Header

Session 6: Modifiers and Miscellaneous Symbols 10

context_module_sub_header 512363 0

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Context Module Sub Header

Useful Resources 11

context_module_sub_header 512365 0

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External Url

BrailleBlaster download BrailleBlaster download 12

external_url 512367 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Computing CoVID-19

Computing CoVID-19 Computing CoVID-19

Page

Computing CoVID-19: About these resources Computing CoVID-19: About these resources 1

wiki_page 512888 0

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Context Module Sub Header

Structural Biology 2

context_module_sub_header 512889 0

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Attachment

ComputingCoVID19_Computing_Protein_Structure.pdf ComputingCoVID19_Computing_Protein_Structure.pdf 3

attachment 512893 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

ComputingCoVID19_Visualizing_Protein_Structure.pdf ComputingCoVID19_Visualizing_Protein_Structure.pdf 4

attachment 512894 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

ComputingCoVID19__Computing_the_Receptor___BLAST_Alignment.pdf ComputingCoVID19__Computing_the_Receptor___BLAST_Alignment.pdf 5

attachment 512895 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

ComputingCoVID19__Computing_the_Receptor___Phylogenetics.pdf ComputingCoVID19__Computing_the_Receptor___Phylogenetics.pdf 6

attachment 512896 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

ComputingCoVID19_Computing_Genomic_Epidemiology (Jan 2021).pdf ComputingCoVID19_Computing_Genomic_Epidemiology (Jan 2021).pdf 7

attachment 512897 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

ComputingCoVID19_Computing_the_Mouse_ACE2_Lab.pdf ComputingCoVID19_Computing_the_Mouse_ACE2_Lab.pdf 8

attachment 512898 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

ComputingCoVID19_Computing_the_Spread_Epidemiology.pdf ComputingCoVID19_Computing_the_Spread_Epidemiology.pdf 9

attachment 512899 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Context Module Sub Header

Medicinal Chemistry 10

context_module_sub_header 512890 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

ComputingCoVID19_Computing_the_Antivirals.pdf ComputingCoVID19_Computing_the_Antivirals.pdf 11

attachment 512901 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

ComputingCoVID19_Computing_AntiViral_Metabolism_and_Similiarities.pdf ComputingCoVID19_Computing_AntiViral_Metabolism_and_Similiarities.pdf 12

attachment 512900 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

ComputingCoVID19_Computing_A_Drug__Lead_Drugs.pdf ComputingCoVID19_Computing_A_Drug__Lead_Drugs.pdf 13

attachment 512902 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

ComputingCoVID19_Computing_A_Drug_Screening_Set.pdf ComputingCoVID19_Computing_A_Drug_Screening_Set.pdf 14

attachment 512903 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

ComputingCoVID19_Ligand_Protein_Docking.pdf ComputingCoVID19_Ligand_Protein_Docking.pdf 15

attachment 512904 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

Computing CoVID-19 Course Review and Recap.pdf Computing CoVID-19 Course Review and Recap.pdf 16

attachment 512905 0

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Context Module Sub Header

Useful Resources 17

context_module_sub_header 512891 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

ComputingCoVID19FullCourse.zip ComputingCoVID19FullCourse.zip 18

attachment 512892 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Bridges-2 at the Pittsburgh Supercomputing Center

Bridges-2 at the Pittsburgh Supercomputing Center Bridges-2 at the Pittsburgh Supercomputing Center

Attachment

StudentGuideToBridges2Supercomputing.pdf StudentGuideToBridges2Supercomputing.pdf 1

attachment 522141 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

GotwalsGuidetoSupercomputing.pdf GotwalsGuidetoSupercomputing.pdf 2

attachment 474307 0

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External Url

Submit a proposal for access Submit a proposal for access 3

external_url 474303 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Context Module Sub Header

Training Materials and Videos 4

context_module_sub_header 474305 0

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Attachment

HPC@Bridges2023.pptx HPC@Bridges2023.pptx 5

attachment 493079 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

HPCTrainingPart1.mp4 HPCTrainingPart1.mp4 6

attachment 492168 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

HPCTrainingPart2.mp4 HPCTrainingPart2.mp4 7

attachment 492167 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Attachment

HPCTrainingPart3.mp4 HPCTrainingPart3.mp4 8

attachment 493083 0

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
Quiz

Bridges-2 Competency Quiz Bridges-2 Competency Quiz 14 9

quiz 474304 1

Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Computational Chemistry Materials

Computational Chemistry Materials Computational Chemistry Materials

External Url

NCSSM Computational Chemistry Tps and Tricks NCSSM Computational Chemistry Tps and Tricks 1

external_url 497773 0

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PyMOL Workshop

PyMOL Workshop PyMOL Workshop

Attachment

Amino acid mnemonics.pdf Amino acid mnemonics.pdf 1

attachment 319987 0

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Context Module Sub Header

Tutorials 2

context_module_sub_header 318657 0

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Attachment

PyMOL User's Guide.pdf PyMOL User's Guide.pdf 3

attachment 318660 0

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External Url

PyMol Wiki (Commands) PyMol Wiki (Commands) 4

external_url 318661 0

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Attachment

PymolRef.pdf PymolRef.pdf 5

attachment 318659 0

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External Url

PyMol Tutorial (Hong Kong) PyMol Tutorial (Hong Kong) 6

external_url 318656 0

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External Url

Practical PyMol for Beginners Practical PyMol for Beginners 7

external_url 318658 0

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Attachment

pymol_tutorial3.pdf pymol_tutorial3.pdf 8

attachment 318662 0

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Attachment

2_Intermed_Pymol.pdf 2_Intermed_Pymol.pdf 9

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Water Structure and Properties Modeling (Middle and High School)

Water Structure and Properties Modeling (Middle and High School) Water Structure and Properties Modeling (Middle and High School)

Attachment

IntroCompChem.pptx IntroCompChem.pptx 1

attachment 310008 0

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Attachment

NCSTAWaterModeling.pdf NCSTAWaterModeling.pdf 2

attachment 310009 0

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Attachment

Worksheet Water Frequencies.pdf Worksheet Water Frequencies.pdf 3

attachment 310010 0

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Attachment

watercomputationannotated.pdf watercomputationannotated.pdf 4

attachment 310011 0

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Attachment

How Water’s Properties Are Encoded in Its Molecular Structure and Energies.pdf How Water’s Properties Are Encoded in Its Molecular Structure and Energies.pdf 5

attachment 310012 0

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Farmer Mark Field Soil Erosion Project (High School Earth Science)

Farmer Mark Field Soil Erosion Project (High School Earth Science) Farmer Mark Field Soil Erosion Project (High School Earth Science)

Attachment

FarmerMarkField-1.pdf FarmerMarkField-1.pdf 1

attachment 241674 0

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Attachment

UpdatedFMField.xlsx UpdatedFMField.xlsx 2

attachment 241357 0

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Attachment

CompleteData.xlsx CompleteData.xlsx 3

attachment 241355 0

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External Url

WEPP Browser Version WEPP Browser Version 4

external_url 241359 0

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External Url

Basic Hillside Profile Basic Hillside Profile 5

external_url 241360 0

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External Url

Databases (Soil, Climate, Management) Databases (Soil, Climate, Management) 6

external_url 241361 0

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Materials for R Programming

Materials for R Programming Materials for R Programming

Attachment

RScriptTemplate.R RScriptTemplate.R 0

attachment 22602 0

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Attachment

Air Quality Program.pdf Air Quality Program.pdf 1

attachment 22594 0

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Attachment

BohrModel R.pdf BohrModel R.pdf 2

attachment 22595 0

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Attachment

DissociationPlot.pdf DissociationPlot.pdf 3

attachment 22593 0

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Attachment

HydrogenicOrbitals SciProg R.pdf HydrogenicOrbitals SciProg R.pdf 4

attachment 22597 0

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Attachment

R Acid Dissociation.pdf R Acid Dissociation.pdf 5

attachment 22596 0

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Attachment

StarPlotting.pdf StarPlotting.pdf 6

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Attachment

myfunctions.R myfunctions.R 7

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Attachment

hyper.csv hyper.csv 8

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Attachment

scores.csv scores.csv 9

attachment 22590 0

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Attachment

airquality.csv airquality.csv 10

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Attachment

compare-scores.csv compare-scores.csv 11

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Attachment

mtcars.csv mtcars.csv 12

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Attachment

HIP_star.csv HIP_star.csv 13

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Attachment

cnsDrugsBlank.R cnsDrugsBlank.R 14

attachment 22603 0

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Attachment

DissociationBlank.R DissociationBlank.R 15

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Attachment

brainsize.txt brainsize.txt 16

attachment 34353 0

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Datasets

Datasets Datasets

Attachment

Civil_War_Battles_Casulties_Year.csv Civil_War_Battles_Casulties_Year.csv 1

attachment 43034 0

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Score at least Must score at least to complete this module item Scored at least Module item has been completed by scoring at least View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete