Navrique/ANAPURNA-seq_old

Automated Nexflow Analysis Pipeline for Unclreared Reads from RNAseq

ANAPURRNAseq : Automated Nexflow Alignement Pipeline for Uncleared Reads from RNAseq

#Bioinformatics #pipeline

Tasks

• Test the pipeline on the a dataset in Data/Sample_dataset
  • adapt the code to reduce space usage at the rRNA step
  • test on Data/Sample_dataset
• README
  • Usage
  • Step description
  • introduction
• publish the pipeline on Github

Done

• Create a pipeline using NextFlow The pipeline can be found into /Bioinformatics/ReadCountPipeline
  • download all files
  • generate fastQC reports
  • generate MultiQC report
  • sort reads using Clumpify
  • Remove adapters
  • Quality filtring
  • Artifact filtering
  • Contamination removal
  • filtering for low complexity
  • Remove rRNA
  • QC Analysis