Automated pipelines for RNAseq data analysis using nextflow and singularity.
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Updated
Jul 23, 2024 - Nextflow
Automated pipelines for RNAseq data analysis using nextflow and singularity.
A Nextflow pipeline to perform quality control, alignment, and quantification of RNA sequencing data.
A Nextflow workflow for processing and analyzing CRAC data
Nextflow pipeline for BWA, BWA2 and STAR alignments
A pipeline for de novo transcriptome assembly of paired-end short reads from bulk RNA-seq
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data
A single-cell RNAseq pipeline for 10X genomics data
RNA-seq analysis pipeline for detection of gene-fusions
nextflow RNAseq pipeline for GG02
Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.
This nextflow pipeline is for downloading and mapping RNA-Seq data from NCBI for different species
A genome annotation pipeline that use short and long sequencing reads alignments from animal genomes
A Nextflow pipeline for performing bacterial RNA-Seq analysis without a reference genome.
See the main fork of this repository here >>>
Analysis of Dual RNA-seq data - an experimental method for interrogating host-pathogen interactions through simultaneous RNA-seq.
Simple Nextflow RNA-Seq pipeline
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