A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core/circrna

circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data

Introduction

nf-core/circrna is a best-practice analysis pipeline for the quantification, miRNA target prediction and differential expression analysis of circular RNAs in paired-end RNA sequencing data.

The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It comes ...

metaboigniter is bioinformatics pipeline for pre-processing of mass spectrometry-based metabolomics data. It can be used to perform quantification and identification based on MS1 and MS2 data. The backbone of pipeline is based on XCMS, OpenMS, CAMERA, MSnbase, MetFrag, CSIFingerID, CFM-ID, and several other customized tools to noise filtering, quantification and identification both for library and in-silico identification. Please go on to this page to learn how to use the workflow

The pipeline ...

RNA sequencing analysis pipeline using STAR, HISAT2 and Salmon with gene counts and quality control.