fitzsimmonscm / lcb_practice Goto Github PK

To access the NIH high-performance computing resources, you will need an HPC account. All users must have their own accounts.

• Fill out the account request form
• Have your PI approve this account
• An automated message will be sent to you when the account is ready. Follow the login instructions in the email.

Note: There is a charge of $35 per month for an HPC account.

The High Performance Computing Group offers a self-paced, online class to introduce new-comers to the biowulf. This is a combination of videos and hands-on exercises. Complete (at minimum) the first 3 sections of the class:

• Section 1: The Basics
• Section 2: Modules, Data Storage and Transfer
• Section 3: The Batch System

• Update your github profile with a clear headshot and a brief description of your interests
• Find 2 accounts to follow that are NOT associated with the LCB_Practice repository

• Sign up for access to the GitHub Learning Lab
• Complete all 5 courses in the (free) First Day on GitHub Path.
• Post a screenshot of your completed Path as a comment on this issue

• Take the introduction to python course on the GitHub Learning Lab
• Post a completed screenshot of your quote bot in action!

TidyTuesday is a weekly project from the R4DS Online Learning Community that is designed to give users practice wrangling data and generating plots and analyses in the R programing language

• Navigate to the Tidy Tuesday Repository
• Follow the instructions for how to download and clean the data
• Practice your Rstudio data wrangling. Focus on improving, even if you end up with something simple
• Post a copy of your completed plot as a comment below
• upload the code necessary to generate your plot into the practice folder in this repository
• You may also post on twitter using the #TidyTuesday hastag

• Complete the first 4 exercises in the Learning Git Branching tutorial.
• Post a screen shot of the green checkmarks indicating you have completed this task

If you're feeling ambitious, you may work ahead in the tutorial!

• Within Rstudio, pull the most recent additions to the repository
• Navigate to the Cowsay Practice Rnotebook
• Read the cowsay tutorial and explore the different code blocks within the practice notebook
• Complete the practice problems at the bottom of the notebook.
• Save and commit your changes (Always pull before you push !!!)
• @FitzsimmonsCM if you get stuck

• #15
• #14
• Post a screenshot or email @FitzsimmonsCM to show the github configuration within Rstudio

Using a programming-specific text editor (DON'T USE WORD) makes it easy to write code accurately without formatting issues (DON'T USE WORD). Here are a few free text editors. Explore and select one that you like. Importantly--DON'T USE WORD.

• Atom (@FitzsimmonsCM uses Atom)
• Notepad++
• BBEdit
• Komodo Edit

Rosalind is a platform to learn bioinformatics through problem solving in the python programming language. This issue focuses on learning the basics of python before moving into the bioinformatics-specific problems.

• Sign up for a free Rosalind Account
• Complete all 6 problems in the Python Village Learning Track
  (you will have unlimited tries and answers are checked automatically)
• Post a screenshot when you have successfully completed all 6 intro problems

• Download and install the github desktop client on your computer.
• Follow the instructions to create a practice or tutorial repository.
• In the comments below, take a screenshot of the final README file or post a link to your tutorial repository

Navigating on the command line is a quick, powerful way to communicate with the computer and will be critical for navigating the Biowulf computing cluster. Below are several tutorials that teach basic unix commands. Each is meant to be completed in approx 1-2 days.

• Command Line Crash Course
• A Basic UNIX Tutorial
• UNIX tutorial for beginners