Here we are going to discuss variant calling on human datasets using GATK Best practices pipeline

RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.

Analysis pipeline for processing paired-end Illumina reads obtained after ancient mtDNA target enrichment capture.

Qiime2 and DADA2 are one of the latest bioinformatics tools used in 16S RNA analysis. The current Qiime2 and DADA2 pipelines support End to End 16S RNA analysis, among other analyses.

This is a code tutorial for rna or dna sequence mapping by myself-RyanYip

Complete Pipeline for RNA-seq data analysis: From FastQ to differntial gene expression to annotated Variations.

This repository contains the code pipeline I developed for Next Generation Sequencing (NGS) analysis during my internship at CSIR-IGIB, New Delhi. The project was completed under the guidance of Mr. Sunil Nagpal and Dr. Bhupesh Taneja. For detailed instructions and a better understanding of pipeline, please refer to the README.md file.

Pipeline para análise de dados genómicos com FastQC, MultiQC e FastP. Inclui scripts para preparação de ambiente, análise de qualidade e execução interativa para verificação de comandos no Conda.

Script to clean Illumina pair-end sequences produced with the Nextera kit. Bases below Q30, Ns, and Nextera adapters are removed. Bases can also be removed at the beginning and end of each sequence. At the end, clean files can be analyzed with FastQC.

Slurm scripts for analyzing bulk Cutandtag data

WDL FastQC

Pipeline for automated genomic variant analysis in inherited diseases, integrating alignment, variant calling, and quality control

Report the mean quality score per base from the output of FastQC.

Dockerized FastQC

A script that efficiently processes multiple '.fastq' files, automatically organizing the pre-trimmed output into a folder named 'qc_reports_pretrim' for streamlined quality control and sequence data analysis.