Video Tutorials for Bioinformatics Software

Introduction

In past years, we asked students to make video tutorials for various bioinformatics software programs. We have compiled them here, roughly by category. Note that some methods can be used for multiple types of data.

How to Make Youtube Tutorials

https://youtu.be/49XBYml-ycs Links to an external site. Links to an external site.

Microarray

• RMA Links to an external site.
• LIMMA Links to an external site.
• Clustering Links to an external site.
• DAVID Links to an external site.

RNA-Seq

• Salmon Links to an external site.
• DESeq Links to an external site.
• STAR Links to an external site.
• Kallisto Links to an external site.
• Sleuth Links to an external site.
• Tophat Links to an external site.
• BWA Links to an external site.

Single Cell RNA-Seq

• Seurat Links to an external site.
• tSNE Links to an external site.
• Clustering biomarkers from scRNA-seq Links to an external site.

Epigenetics

• MACS Links to an external site.
• BETA Links to an external site.

Genomics

• PLINK Links to an external site.
• GCTA Links to an external site.
• Genome Browser Links to an external site.
• Bedtools Links to an external site.
• PICARD Links to an external site.

CRISPR Screen

• MAGeCK-VISPR 1: Installation Links to an external site.
• MAGeCK-VISPR 2: Pipeline Configuration Links to an external site.
• MAGeCK-VISPR 3: Quality Control Demo Links to an external site.
• MAGeCK-VISPR 4: Results Demo Links to an external site.

Other

• HMM in R Links to an external site.
• LASSO Regression in R Links to an external site.
• Unsupervised Machine Learning Links to an external site.
• Survival Analysis Links to an external site.