nf-core / scrnaseqLinks
Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection
☆295Updated this week
Alternatives and similar repositories for scrnaseq
Users that are interested in scrnaseq are comparing it to the libraries listed below
Sorting:
- ATAC-seq peak-calling and QC analysis pipeline☆213Updated 3 months ago
- Application for making ENCODE Blacklists☆323Updated 4 years ago
- ChIP-seq peak-calling, QC and differential analysis pipeline.☆225Updated last month
- ☆275Updated 11 months ago
- RNA-seq workflow using STAR and DESeq2☆346Updated last month
- zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs☆286Updated last year
- Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal☆227Updated last month
- Intro to ChIPseq using HPC☆314Updated 2 years ago
- SUPPA: Fast quantification of splicing and differential splicing☆281Updated last year
- ENCODE ChIP-seq pipeline☆273Updated last year
- parallel fastq-dump wrapper☆299Updated 2 years ago
- TCR and BCR assembly from RNA-seq data☆327Updated 2 weeks ago
- 10x Genomics Single Cell Analysis☆434Updated 8 months ago
- Customizable workflows based on snakemake and python for the analysis of NGS data☆397Updated last week
- Collections of library structure and sequence of popular single cell genomic methods☆481Updated 5 months ago
- ☆208Updated 2 months ago
- ENCODE ATAC-seq pipeline☆433Updated last year
- A package for including transposable elements in differential enrichment analysis of sequencing datasets.☆265Updated last month
- HiC-Pro: An optimized and flexible pipeline for Hi-C data processing☆424Updated last year
- GTEx & TOPMed data production and analysis pipelines☆384Updated last month
- Table of software for the analysis of single-cell RNA-seq data.☆331Updated this week
- Tools for handling Unique Molecular Identifiers in NGS data sets☆525Updated 3 months ago
- A tool to map bisulfite converted sequence reads and determine cytosine methylation states☆434Updated 2 months ago
- Step-by-step analysis pipeline for RNA-seq data☆146Updated 2 years ago
- Fast and accurate gene fusion detection from RNA-Seq data☆246Updated 3 weeks ago
- Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)☆297Updated this week
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆240Updated last week
- Quick mining and visualization of NGS data by integrating genomic databases☆266Updated 2 years ago
- A collection of scripts and notes related to genomics and bioinformatics☆219Updated 2 weeks ago
- Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel☆178Updated 2 weeks ago