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What You’ll Learn
✓Understand the complete Whole Genome Sequencing workflow
✓Perform quality control of raw sequencing data
✓Preprocess and trim raw FASTQ reads
✓Align sequencing reads to a reference genome
✓Process and analyze SAM/BAM alignment files
✓Perform SNP and INDEL variant calling
✓Filter high-confidence genomic variants
✓Annotate and interpret genetic variants
✓Visualize variants using genomic visualization tools
✓Execute a complete WGS analysis project
Tools & Technologies
GATK — Variant Calling & Genomic AnalysisBWA-MEM2 — High-Performance Read AlignmentSAMtools — BAM Processing & Alignment AnalysisFastQC — Sequencing Quality ControlMultiQC — Multi-Sample QC ReportingSnpEff — Variant AnnotationIGV — Interactive Genome Visualization
Course Curriculum
Introduction to Whole Genome Sequencing · 60 mins — practical lessons, demonstrations and guided work included in this module.
NGS Data & FASTQ File Format · 60 mins — practical lessons, demonstrations and guided work included in this module.
Linux Environment for WGS Analysis · 60 mins — practical lessons, demonstrations and guided work included in this module.
Quality Control of Raw Sequencing Reads · 60 mins — practical lessons, demonstrations and guided work included in this module.
Read Trimming & Preprocessing · 60 mins — practical lessons, demonstrations and guided work included in this module.
Reference Genome & Read Alignment · 60 mins — practical lessons, demonstrations and guided work included in this module.
SAM/BAM Processing & Indexing · 60 mins — practical lessons, demonstrations and guided work included in this module.
Alignment Quality Assessment & Coverage Analysis · 60 mins — practical lessons, demonstrations and guided work included in this module.
Germline Variant Calling with GATK · 60 mins — practical lessons, demonstrations and guided work included in this module.
SNP & INDEL Filtering · 60 mins — practical lessons, demonstrations and guided work included in this module.
Variant Annotation with SnpEff · 60 mins — practical lessons, demonstrations and guided work included in this module.
Variant Visualization with IGV · 60 mins — practical lessons, demonstrations and guided work included in this module.
Variant Interpretation & Prioritization · 60 mins — practical lessons, demonstrations and guided work included in this module.
Complete WGS Analysis Mini Project · 60 mins — practical lessons, demonstrations and guided work included in this module.
Project Results, Report Writing & Career Guidance · 60 mins — practical lessons, demonstrations and guided work included in this module.
Your Instructor
Bio Help Learning Educator
Educator | MentorLearn from experienced educators and practitioners through practical, career-focused bioinformatics training.
Student Reviews
AV
“Excellent course! The content is practical and the projects made the concepts much easier to apply.”
Ananya VermaPhD Scholar, India★★★★★RM
“Hands-on projects made all the difference. Highly recommended for anyone interested in NGS.”
Rahul MehtaResearch Associate, Germany★★★★★SM
“Very detailed and industry-relevant content. I feel much more confident now.”
Sneha PatelBioinformatics Analyst, India★★★★★Frequently Asked Questions
Need help? →Is this course suitable for beginners?⌄
Yes. The course starts with the fundamentals of Whole Genome Sequencing and progressively introduces practical WGS data analysis.
Do I need prior bioinformatics experience?⌄
No. Prior WGS experience is not required. Basic knowledge of biology and genetics is helpful.
Do I need programming knowledge?⌄
No advanced programming knowledge is required. Basic Linux command-line concepts will be introduced during the training.
How long is the training?⌄
The training is 15 hours delivered over 15 days, with 1 hour of live training each day.
Is this course theoretical or hands-on?⌄
The course focuses on hands-on bioinformatics analysis using sequencing datasets and industry-relevant WGS tools.
Which tools will I learn?⌄
You will work with GATK, BWA-MEM2, SAMtools, FastQC, MultiQC, SnpEff and IGV.
Will I learn variant calling?⌄
Yes. The course covers SNP and INDEL variant calling, filtering and downstream interpretation.
Will I learn variant annotation?⌄
Yes. You will learn how to annotate genetic variants and understand their potential functional consequences using SnpEff.
Will I work with real sequencing data?⌄
The training includes practical WGS datasets so that you can practice the complete analysis workflow.
Will I complete a project?⌄
Yes. The final sessions include a hands-on WGS mini project covering the workflow from raw sequencing reads to variant interpretation.
Will I receive a certificate?⌄
Yes. Participants who successfully complete the training requirements will receive a Certificate of Completion.
Will I get course materials?⌄
Yes. Course materials, practical resources and relevant analysis files will be provided as part of the training.
