Bioinformagician Courses

WGS Variant Calling - Variant Calling with GATK - Part 1 - Detailed NGS Analysis Workflow

1 rating

Follow a GATK best-practice workflow to process whole-genome sequencing reads and call SNPs and indels into a VCF file.

• YouTube
• 48 minutes
• Self-Paced
• Free Video

Understanding File Formats in Bioinformatics - VCF and gVCF

1 rating

Learn to read VCF and gVCF files, interpret variant records and genotypes, and understand genomic variation in variant-calling workflows.

• YouTube
• 26 minutes
• Self-Paced
• Free Video

DESeq2 Basics Explained - Differential Gene Expression Analysis - Bioinformatics 101

1 rating

Understand how DESeq2 uses count-data modeling, normalization, dispersion estimates, generalized linear models, and hypothesis testing to identify differentially expressed genes.

• YouTube
• 26 minutes
• Self-Paced
• Free Video

Metagenomics Taxonomic Classification Using Kraken 2 in OmicsBox

1 rating

Learn metagenomics analysis using Kraken 2 in OmicsBox. Covers data preprocessing, taxonomic classification, visualization, and differential abundance analysis for shotgun sequencing data.

• YouTube
• 42 minutes
• Self-Paced
• Free Video

Somatic Variant Calling with Mutect2 - GATK Best Practices Tutorial

Explore somatic variant calling with Mutect2, covering key concepts, challenges, and hands-on demonstration of variant identification, filtering, and annotation using GATK best practices.

• YouTube
• 38 minutes
• Self-Paced
• Free Video

NGS Data 101 - FASTQ Files, Library Preparation, and Lane Multiplexing

Understand why NGS samples generate multiple FASTQ files through library prep, flowcells, lane multiplexing, and learn proper data organization strategies for bioinformatics workflows.

• YouTube
• 23 minutes
• Self-Paced
• Free Video

Elucidata's Bulk RNA-Seq OmixAtlas - Effortless Dataset Discovery and Retrieval

Explore Polly’s Bulk RNA-Seq OmixAtlas to discover, inspect, visualize, and download curated gene-expression datasets.

• YouTube
• 28 minutes
• Self-Paced
• Free Video

WGS Variant Calling - Variant Filtering and Annotation - Part 2 - Detailed NGS Analysis Workflow

Filter germline variants using site- and genotype-level criteria, then annotate them with GATK Funcotator for downstream analysis.

• YouTube
• 43 minutes
• Self-Paced
• Free Video

Weighted Gene Co-expression Network Analysis - Step-by-Step Tutorial - Part 1

A step-by-step R workflow for building weighted gene co-expression networks from RNA-seq data, from quality control and normalization to module detection and visualization.

• YouTube
• 36 minutes
• Self-Paced
• Free Video

Single-Cell Trajectory Analysis Using Monocle3 and Seurat - Step-by-Step Tutorial

Learn to construct single-cell trajectories in R with Monocle3 and Seurat, including pseudotime ordering and trajectory-dependent gene analysis.

• YouTube
• 49 minutes
• Self-Paced
• Free Video

Setup RNA-Seq Pipeline From Scratch - Fastq to Counts - Step-by-Step Tutorial

Build a Bash pipeline that processes bulk RNA-seq FASTQ reads through quality control, trimming, HISAT2 alignment, and featureCounts quantification.

• YouTube
• 32 minutes
• Self-Paced
• Free Video

Bioinformatics and Computational Biology - The Present Gateway to Research

An expert guest lecture on entering bioinformatics and computational biology, covering field distinctions, research applications, skills, careers, graduate programs, and job prospects.

• YouTube
• 1 hour 2 minutes
• Self-Paced
• Free Video

Pseudo-Bulk Analysis for Single-Cell RNA-Seq Data - Detailed Workflow Tutorial

Walk through pseudo-bulk differential expression analysis for single-cell RNA-Seq data by aggregating sample-level counts and using DESeq2 in R.

• YouTube
• 36 minutes
• Self-Paced
• Free Video

Find Markers and Cluster Identification in Single-Cell RNA-Seq Using Seurat - Workflow Tutorial

Use Seurat in R to identify cluster markers conserved across conditions and detect treatment-related differential expression in single-cell RNA-seq data.

• YouTube
• 34 minutes
• Self-Paced
• Free Video

Integrate Single-Cell RNA-Seq Datasets in R Using Seurat - Detailed Seurat Workflow Tutorial

Use Seurat in R to merge single-cell RNA-seq datasets, correct batch effects, and compare UMAP visualizations before and after integration.

• YouTube
• 34 minutes
• Self-Paced
• Free Video