The following files accompany this module: 09_Examples.xlsx 09_Exercises.xlsx 09_NormalCurve_ShadedArea.xlsx 09_SolvingForX.xlsx z-Values_AreaBetweenMean&X.xlsx

This module is assocated with Clear-Sighted Statistics: Module 9: Normal Probability Distributions (slides)

This file is associated with Clear-Sighted Statistics, Module 14: One-Sample Null hypothesis Significance Tests.

This file is associated with Clear-Sighted Statistics, Module 14: One-Sample Null hypothesis Significance Tests.

This file is associated with Clear-Sighted Statistics, Module 11: Confidence Intervals, Module 14: One-Sample Null hypothesis Significance Tests, and Module 15: Two-Sample Null Hypothesis Significance Tests.

This file is associated with Clear-Sighted Statistics, Module 11: Confidence Intervals, Module 14: One-Sample Null hypothesis Significance Tests, and Module 15: Two-Sample Null Hypothesis Significance Tests.

This file is associated with Clear-Sighted Statistics, Module 15: Two-Sample Null Hypothesis Significance Tests.

This file is associated with Clear-Sighted Statistics, Module 14: One-Sample Null hypothesis Significance Tests.

This file is associated with Clear-Sighted Statistics, Module 14: One-Sample Null hypothesis Significance Tests.

This file is associated with Clear-Sighted Statistics, Module 14: One-Sample Null hypothesis Significance Tests.

This file is associated with Clear-Sighted Statistics, Module 14: One-Sample Null hypothesis Significance Tests.

This file is associated with Clear-Sighted Statistics, Module 15: Two-Sample Null Hypothesis Significance Tests.

This material introduces Linux File System structures and demonstrates how to use commands to communicate with the operating system through a Terminal program. Basic program structures and system() function of Perl are discussed. A brief introduction to gene-sequencing terminology and file formats are given.

This material introduces the AWS console interface, describes how to create an instance on AWS with the VMI provided, connect to that machine instance using the SSH protocol. Once connected, it requires the students to write a script to enter the data folder, which includes gene-sequencing input files and print the first five line of each file remotely. The same exercise can be applied if the VMI is installed on a local machine using virtualization software (e.g. Oracle VirtualBox). In this case, the Terminal program of the VMI can be used to do the exercise.

This manual guides the instructor to combine the partial files of the virtual machine image and construct sequencer.ova file. It is accompanied by the partial files of the virtual machine image.

This material briefly reintroduces the DNA double Helix structure, explains SNP and INDEL mutations in genes and describes FASTA, FASTQ, BAM and VCF file formats. It also explains the index creation, alignment, sorting, marking duplicates and variant calling steps of a simple preprocessing workflow and how to write a Perl script to automate the execution of these steps on a Virtual Machine Image.

This material introduces the AWS console interface, describes how to create an instance on AWS with the VMI provided and connect to that machine instance using the SSH protocol. Once connected, it requires the students to write a script to automate the tasks to create VCF files from two different sample genomes belonging to E.coli microorganisms by using the FASTA and FASTQ files in the input folder of the virtual machine. The same exercise can be applied if the VMI is installed on a local machine using virtualization software (e.g. Oracle VirtualBox). In this case, the Terminal program of the VMI can be used to do the exercise.

The online geology lab for community college students was developed by Dr. Rondi Davies, a faculty member at Queensborough Community College, City University New York, during two years of forced online synchronous learning brought on by the COVID-19 pandemic. This open educational resource collects many of Dr. Davies’ favorite open-access materials and supplements them with her own work within a single, cohesive laboratory manual intended for two-year, non-major college students from the New York area.