Abstract

You finally decided to analyse some single cell data, you got your files either from the lab or publicly available sources, you opened the first tutorial available on Galaxy Training Network and... you hit the wall! The format of your files is not compatible with the one used in tutorial! Have you been there?

About This Material

This is a Hands-on Tutorial from the GTN which is usable either for individual self-study, or as a teaching material in a classroom.

Questions this will address

• What are the most popular single cell datatypes?
• What if the format of my files is different than that used in the tutorial I want to follow?
• Where should I start the analysis, depending on the format of my data?
• How do I ingest data into Galaxy?
• How do I convert datasets between formats?

Learning Objectives

• You will identify different single cell files formats.
• You will import single cell data into Galaxy using different methods.
• You will manipulate the metadata and matrix files.
• You will perform conversions between the most common single cell formats.
• You will downsample FASTQ files.