Category: transcriptomics

Next-Generation Sequencing (NGS) data requires rigorous quality control to ensure reliability and accuracy. This guide outlines essential sanity checks for…

Next-Generation Sequencing (NGS) generates massive amounts of data, often in the form of FASTQ files, which can be several gigabytes…

Processing SFF and FastQ files efficiently is a common task in bioinformatics. Below is a step-by-step guide to efficiently view, analyze, clip ends, convert,…

Merging thousands of small BAM files into a single large BAM file is a common task in bioinformatics, especially for…

This guide provides step-by-step instructions to convert a VCF file to PLINK PED/MAP format while filtering SNPs based on Minor…

Introduction Paired-end sequencing is widely used in next-generation sequencing (NGS) to generate reads from both ends of DNA fragments, providing…

This guide is designed to provide a detailed and structured manual for downloading all SRA (Sequence Read Archive) samples associated…

1. Introduction to Chimeric Reads Chimeric reads are sequencing reads that align to two or more distinct genomic regions, often…

Introduction Next-Generation Sequencing (NGS) has revolutionized genomic research by enabling rapid and high-throughput sequencing of DNA and RNA. Common platforms…

RNA sequencing (RNA-Seq) is a powerful technique for studying gene expression. To analyze RNA-Seq data, bioinformaticians use tools like STAR,…

As a bioinformatician, you may be tasked with explaining the differences between various methods for differential expression (DE) analysis, such…

Understanding how much sequencing depth is needed for an RNA-Seq experiment depends on your experimental goals, sample complexity, and the…

Next-Generation Sequencing Data Analysis Introduction Recent advancements in DNA sequencing technologies have revolutionized genomics by making massively parallel sequencing both…