snakemake-workflows / cookiecutter-snakemake-workflow
A cookiecutter template for Snakemake workflows
☆57Updated 3 years ago
Alternatives and similar repositories for cookiecutter-snakemake-workflow:
Users that are interested in cookiecutter-snakemake-workflow are comparing it to the libraries listed below
- Monitor computational workflows in real time☆70Updated 8 months ago
- A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, …☆83Updated this week
- Documentation of the Snakemake-Profiles project.☆52Updated 2 years ago
- Reference genome resource manager☆74Updated last year
- Sequana: a set of Snakemake NGS pipelines☆145Updated this week
- A collection of unexpected challenges and learnings with nextflow and nf-core.☆34Updated last year
- B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework☆59Updated 2 weeks ago
- Merging paired-end reads and removing adapters☆44Updated 4 years ago
- A template for standard compliant snakemake-workflows☆91Updated last year
- Snakemake-based workflow for detecting structural variants in genomic data☆79Updated this week
- A collection of scripts to assist in the retrieval of data from the ENA Browser☆79Updated 10 months ago
- A set of workflows written in Nextflow for Genome Annotation.☆44Updated 7 months ago
- A Strategy for Building and Using a Human Reference Pangenome☆70Updated 4 years ago
- GenMap - Fast and Exact Computation of Genome Mappability☆104Updated 7 months ago
- Simple pure Python SAM parser and objects for working with SAM records☆63Updated 2 years ago
- Snakemake profile for running jobs on an LSF cluster☆36Updated 6 months ago
- An NGS read trimming tool that is specific, sensitive, and speedy. (production)☆121Updated last year
- cDNA read preprocessing☆65Updated 6 months ago
- Pauvre: QC and genome browser plotting Oxford Nanopore and PacBio long reads.☆52Updated 3 months ago
- Maximum likelihood demultiplexing☆46Updated 2 years ago
- Nextflow plugin for VIM☆49Updated last year
- A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.☆43Updated 2 years ago
- Python3 scripts to manipulate FASTA and FASTQ files☆70Updated 3 months ago
- BigWig and BAM utilities☆93Updated 10 months ago
- A python package and a set of shell commands to handle GTF files☆46Updated 7 months ago
- A method for variant graph genotyping based on exact alignment of k-mers☆87Updated 5 years ago
- igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"☆126Updated last year
- List of computational resources for analyzing microbial sequencing data.☆66Updated last year
- Documentation of the Snakemake-Workflows project☆153Updated 3 years ago
- A Python library to visualize and analyze long-read transcriptomes☆58Updated 11 months ago