Fee: Rs 65000/-
1. Fee: Rs 65000

   Day 1 - 5: Introduction to NGS and Sequencing Platforms

   • Overview of NGS Technologies
   • Sequencing Platforms: Illumina, Ion Torrent, PacBio, Oxford Nanopore
   • Applications of NGS
   • Data Formats: FASTQ, SAM, BAM, VCF
   • Hands-on Practice: Downloading sample datasets from NCBI SRA

2. Day 6 - 10: Quality Control of NGS Data

   • Quality Assessment Tools: FastQC
   • Trimming and Filtering: Trimmomatic, Cutadapt
   • Adapter Removal and Base Quality Filtering
   • Hands-on Practice: Running FastQC and Trimmomatic

3. Day 11 - 15: Data Preprocessing and Alignment

   • Genome Indexing: Bowtie2, BWA
   • Sequence Alignment: Mapping reads to reference genome
   • Sorting and Indexing BAM files: SAMtools
   • Hands-on Practice: Aligning reads with BWA and analyzing BAM files

4. Day 16 - 20: Post-Alignment Processing

   • Duplicate Removal: Picard Tools
   • Realignment and Base Recalibration: GATK Tools
   • Sorting and Indexing BAM files
   • Hands-on Practice: Processing aligned data using SAMtools and Picard

5. Day 21 - 25: Variant Calling and Annotation

   • SNP and INDEL Calling: FreeBayes, VarScan
   • Variant Annotation: ANNOVAR, SnpEff
   • Filtration and Prioritization of Variants
   • Hands-on Practice: Calling variants using FreeBayes and annotating using ANNOVAR

6. Day 26 - 30: RNA-Seq Data Analysis

   • Transcriptome Assembly: HISAT2, StringTie
   • Differential Gene Expression Analysis: DESeq2, edgeR
   • Functional Annotation and Pathway Analysis
   • Hands-on Practice: RNA-Seq alignment and expression analysis

7. Day 31 - 35: Metagenomics Analysis

   • Taxonomic Classification: Kraken2, MetaPhlAn
   • Functional Annotation: HUMAnN
   • Microbial Community Profiling
   • Hands-on Practice: Analyzing metagenomics data using Kraken2

8. Day 36 - 40: De Novo Assembly and Genome Annotation

   • Genome Assembly: SPAdes, Velvet
   • Scaffolding and Contig Merging
   • Annotation Tools: Prokka, MAKER
   • Hands-on Practice: Assembling genomes and performing annotation

9. Day 41 - 45: Visualization and Data Interpretation

   • Genome Browsers: IGV, UCSC Genome Browser
   • Visualization Tools: Circos, Integrative Genomics Viewer
   • Hands-on Practice: Visualizing data and interpreting results

10. Day 46 - 50: Reporting and Final Project

    • Summarizing Results and Findings
    • Project Presentation and Feedback
    • Generating Reports using MultiQC
    • Q&A and Certification
    
    

    Contact for

Please contact on +91-7993084748 for more details