A 7 days long summer workshop on single-cell (transcript)omics and data analysis.

Date, Time & Location

Date	06-17/08; See calendar below
Time	10:30-12:30
Location	Accra campus of Uni. Ghana; Bioinformatics room

About the course

In this course we will combine lectures with on-hand data analysis to understand concepts and learn skills to analyze publicly available single-cell data for your own research.

Please find additional information on the links below. Some of them will only be available / complete later.

• Overview and details are on the course website.
• We will use the EDA google group for email communication.
  • If you don’t want to follow this course, you can unsubscribe / setup to receive no emails.
• Course materials will be online on google drive (http://bit.ly/SCG_drive).
• Reading: http://bit.ly/Readings_SC_OMICS

Topics covered

• Single-cell biology: concepts, history and technologies.
• Single-cell transcriptomics: experimental and analytic overview.
• R-programming to explore and visualize data.
• Data analysis concepts related to high-throughput data, and single-cell transcriptomics.
• Exploring published single-cell datasets as resource.

Format

• ~15 people.
• Combination of lectures (powerpoint/slide based) and on-hands programming in a computer lab / own laptop in R.
• Full-day course, 5 days a week, 2 weeks.
• Assignments.

Prerequisites

• If you don’t have one, please contact us.
• You also need to install RStudio on your laptop before the course (it’s free).

The course is intended for those who have basic familiarity with:

• Molecular biology of the cell, especially gene expression and RNA-biology.

• Statistics.

• R programming language.

  • You can learn about this free language and editor at Rstudio here and here.

  • If you are unfamiliar with R, you can also apply for the Exploratory data analysis in R course.

Materials and Reading

Before the course

• The course might be quite steep for some of you, and if you feel we miss some basics, please go ahead to fill in the gaps so you can better follow the course!
• Introduction, and links to tutorials and books will be provided here if you want to brush up your knowledge on some topics.

During the course

• Course notes, lecture slides and programming examples will be available on google drive (and will remain so after the course for a time (alt:http://bit.ly/SCG_drive).

The slides are online:

(Use 2D navigation with arrows, or simply click the space bar!)

• 00.intro.SCG

• 01.Next.gensequencing

• 03.Single-cell.experiments

• 04.1.1.Unix.essentials

• 04.2.Analysis.pipeline

• 04.3.File.formats

• 04.x.Single-cell.prices

• 05.0.Example.dataset.analysis.with.Seurat.html

• 5.4.1.Linear.dimensionality.reduction.by.PCA.html

• 5.4.6.Clustering.html

• 5.4.7.Non-linear.dimensionality.reduction.by.tSNE.html

• 5.4.8._Finding.differentially.expressed.genes.DEG.html

• 05.x.Object.oriented.programming.brief.explanation.html

Registration

• If you did not register yet: apply for the course online.
  • Note, that registration now only allows you to join if there are free places due to cancellation.
  • If you registered in June, please confirm participation ASAP on: https://goo.gl/forms/qKmwXc3rZzY5tBjO2

Calendar

Location

Contact

summer.course.2018.accra AT gmail.com