johandahlberg / piperLinks
A genomics pipeline build on top of the GATK Queue framework. Main repository: https://github.com/NationalGenomicsInfrastructure/piper (make sure you fork from there)
☆21Updated 9 years ago
Alternatives and similar repositories for piper
Users that are interested in piper are comparing it to the libraries listed below
Sorting:
- Basic, no assumptions, multi-pileup☆24Updated 11 years ago
- Benchmarking toolkit for variant calling☆48Updated 5 years ago
- variant discovery and annotation using GATK and Ensembl☆17Updated 12 years ago
- Parallel merging, squaring off and ensemble calling for genomic variants☆20Updated 6 years ago
- Toil workflows for common genomic pipelines☆33Updated 6 years ago
- Analysis Framework for Biological Data from High Throughput Experiments☆34Updated 9 years ago
- Docker images of bioinformatics software☆21Updated 8 years ago
- Consensus assembly and variant calling workflow.☆12Updated 10 years ago
- robust matching of small variant datasets using flexible scoring schemes☆11Updated 5 years ago
- Import a CWL workflow specification to Nextflow script (experimental)☆27Updated 7 years ago
- Lightweight workflows in bioinformatics:☆24Updated 11 years ago
- Automatic Packaging and Distribution of Bioinformatics Pipelines☆26Updated 8 years ago
- variant integration methods for the 1000 Genomes Project☆21Updated 7 years ago
- A Feature Density Estimator for High-Throughput Sequence Tags☆22Updated 4 years ago
- Import and run CWL workflows on DNAnexus (alpha)☆13Updated 7 years ago
- ALPACA is a caller for genomic variants (single nucleotide and small indels) from next-generation sequencing data that uses a novel algeb…☆23Updated last year
- Parallel Recipes : parallel workflow execution made easy☆13Updated 10 years ago
- Load genomic BAM files using Apache Spark☆21Updated 7 years ago
- A repository of notes, code, slides, and resources for the MetaPathways tutorial being held February 2014 at UBC.☆18Updated 10 years ago
- A library for manipulating bioinformatics sequencing formats in Apache Spark☆32Updated 2 months ago
- http://bam.iobio.io☆47Updated last year
- RNF framework for NGS: simulation of reads, evaluation of mappers, conversion of RNF-compliant data.☆14Updated last week
- WDL plugin for pytest☆48Updated 2 years ago
- Butler is a framework for running scientific workflows on public and academic clouds.☆69Updated 5 years ago
- Set of tools for viral metagenomics.☆13Updated last week
- Quality control methods for human genomic variants.☆62Updated 3 years ago
- An integrated high performance bioinformatics toolkit☆23Updated 6 years ago
- vgraph is a command line application and Python library to compare genetic variants using variant graphs. ``vgraph`` utilizes a graph re…☆43Updated 4 years ago
- Parallel Genomic Analysis Toolkit☆14Updated 6 years ago
- Curated collection of open-source bioinformatics tools☆28Updated 6 years ago