Python and R: basic coding skills, creating different kinds of plots from large data sets, customizing plots, ggplot library ®
Data analysis and analysis of different data plots
Background information on the experiment (review on interpreting microarray data)
Role of genetics and DNA on the project
Tools:
G-suite
Stem-Away Forum
Google Colab (I am still working on running Jupyter Notebook as I ran into issues with installation)
R studio
Soft-Skills:
Collaborating with small and large groups of peers
Learning through virtual meetings
Effectively communicating with others online
Asking for assistance when running into issues
Three Achievements
I understand the background information on the project and the experimental portion with microarrrays
I attended most of the webinars and watched the recordings of all the ones that I was unable to attend and have a clear understanding of most of the technical skills (especially R and Python)
I met the two other members of my group and we have all established methods of communication through Slack and the Stem-Away Forum
List of Meetings/Trainings attended
Informal Team Meeting (6/1) to set up mentorchains on gmail and Slack account
R training workshops (6/5 and 6/12)
Python training sessions (Beginning and Advanced)
Technical Training Webinar (6/10)
Welcome Session on Leadership and Program Management (6/10)
Gene Team Meeting (6/11)
Gene Team Meeting (6/15)
Python Office Hours (6/15)
Asana Training (6/16)
Goals
Fix technical issues and Install Jupyter Notebook
Complete 6/12 R Exercises and get a more clear understanding of R
Attend all upcoming webinars and training sessions
Learn more about the tasks for Week 3
Tasks Completed/Hurdles Faced
I attended and learned from the trainings and webinars
I read and understood the research paper
I faced difficulties installing Jupyter Notebook so I attended the Python Office Hours (6/15) and received help and hope to resolve the issues by the end of this week and also be able to complete the Python exercises that I was unable to do
Relative Log Expression (RLE) and Normalized Unscaled Standard Error (NUSE)
Principal Component Analysis (PCA)
Plotting Histograms and Scatterplots through RStudio
Tools:
Asana
G-suite
STEM-Away Forum
Jupyter Notebook
RStudio
Slack
Soft-Skills
Speaking comfortably in groups with a large and small amount of people
Successfully troubleshooting with a team
Asking questions when faced with an issue and solving problems effectively
Working through team meetings productively
Three Achievements:
I was able to complete the deliverables for Week 3 on time with the help of my group members
I now have a more clear understanding of how to use RStudio
I fixed the issues with installing Jupyter Notebook and was able to download Anaconda and Jupyter Notebook so I was able to complete the Python exercises from last week
List of Meetings/Trainings Attended:
Python and Pandas Webinar (6/16)
Technical Training Webinar (6/17)
Gene Team Meeting (6/18)
Team 7 Group Meetings (6/21 and 6/22)
Gene Team Meeting (6/22)
Goals:
Work with Team 6 and Team 7 (my team) to create a presentation comparing our results
Begin working on the Week 4 deliverables
Attend all upcoming trainings and webinars
Tasks Completed/Hurdles Faced:
Completed analysis of the assigned data set
Ran into issues with unzipping the files my group helped me figure out how to fix it
Had issues creating the histogram of RLE and NUSE median values and the PCA scatterplot but consulted with my team and figured it out
Reading and identifying pipeline in scientific paper
Creating heatmap in R
Creating volcano plot in R
Tools:
Github
G-suite
RStudio
Asana
STEM-Away Forum
Slack
Soft-Skills:
Learned how to troubleshoot on my own
Working through deliverables on my own without the assistance of my team
Networking and making connections on LinkedIn
Speaking in front of the team
Three Achievements:
Completed the final deliverables
Attended the last Gene Team Meeting
Networked with new people on LinkedIn
List of Meetings/Trainings Attended:
Gene Team Meeting (7/15)
R Office Hours (7/17)
Gene Team Meeting (7/21)
Goals:
Present the final deliverables
Network with more people on LinkedIn
Complete Final Assessment for this session
Tasks Completed/Hurdles Faced:
I had a little confusion surrounding the data set and the wording of the paper when starting the final deliverables but I resolved the issue with the leads and the mentors
I had some trouble using limma on my own without the assistance of my group but I was able to figure it out and complete the deliverables