maxplanck-ie / snakepipesLinks
Customizable workflows based on snakemake and python for the analysis of NGS data
☆398Updated 2 weeks ago
Alternatives and similar repositories for snakepipes
Users that are interested in snakepipes are comparing it to the libraries listed below
Sorting:
- RNA-seq workflow using STAR and DESeq2☆344Updated last year
- parallel fastq-dump wrapper☆299Updated 2 years ago
- GTEx & TOPMed data production and analysis pipelines☆377Updated 2 months ago
- Package for fetching metadata and downloading data from SRA/ENA/GEO☆338Updated 2 months ago
- Application for making ENCODE Blacklists☆317Updated 4 years ago
- SUPPA: Fast quantification of splicing and differential splicing☆279Updated last year
- A tool to map bisulfite converted sequence reads and determine cytosine methylation states☆431Updated 2 weeks ago
- A tool to find sequencing data and metadata from public databases.☆584Updated last year
- Intro to ChIPseq using HPC☆310Updated 2 years ago
- Tools for handling Unique Molecular Identifiers in NGS data sets☆517Updated last month
- Fast and accurate gene fusion detection from RNA-Seq data☆245Updated this week
- ChIP-seq peak-calling, QC and differential analysis pipeline.☆218Updated last month
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆395Updated 3 weeks ago
- A collection of scripts and notes related to genomics and bioinformatics☆216Updated last month
- HiC-Pro: An optimized and flexible pipeline for Hi-C data processing☆418Updated last year
- Miscellaneous collection of Python and R scripts for processing Iso-Seq data☆273Updated last year
- ATAC-seq peak-calling and QC analysis pipeline☆208Updated last month
- This Snakemake pipeline implements the GATK best-practices workflow☆257Updated 2 years ago
- genes and genomes at your fingertips☆398Updated 3 months ago
- ENCODE ChIP-seq pipeline☆271Updated last year
- zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs☆283Updated last year
- Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.☆374Updated 2 months ago
- Performant Pythonic GenomicRanges☆483Updated 5 months ago
- Collections of library structure and sequence of popular single cell genomic methods☆474Updated 3 months ago
- python module to plot beautiful and highly customizable genome browser tracks☆834Updated last year
- GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more☆429Updated 7 months ago
- RSEM: accurate quantification of gene and isoform expression from RNA-Seq data☆448Updated last year
- Plot structural variant signals from many BAMs and CRAMs☆544Updated last year
- Quick mining and visualization of NGS data by integrating genomic databases☆266Updated 2 years ago
- A package for including transposable elements in differential enrichment analysis of sequencing datasets.☆258Updated 6 months ago