/simple_RNA-seq

Primary LanguageNextflow

RNA sequencing pipeline

This repository is a RNA sequence pipeline made in nexflow.

Pre-requisites

Conda environment

Pipeline

The pipeline comprises of the following steps:

  1. Quality control carried out using FASTQC
  2. Building and mapping an index using Hisat2
  3. Sorting and indexing the SAM file using samtools
  4. Read quantification utilIzing the R Rsubread package.