base2genomics / batchit
simple jobs submission via command-line for AWS batch
☆80Updated 5 years ago
Alternatives and similar repositories for batchit:
Users that are interested in batchit are comparing it to the libraries listed below
- Workflow Description Language compiler for the DNAnexus platform☆40Updated last year
- WDL plugin for pytest☆48Updated last year
- Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integr…☆70Updated 2 months ago
- A fast Python library for VCF files leveraging Cython for speed.☆52Updated 6 years ago
- Toil workflows for common genomic pipelines☆33Updated 5 years ago
- conda recipes for genomic data☆85Updated 3 years ago
- Manuscript describing ChronQC is now available online in Bioinformatics☆18Updated 5 years ago
- Parse Illumina sample sheets with Python☆50Updated 10 months ago
- a pileup library that embraces the huge☆42Updated 4 years ago
- This solution provides a framework for Next Generation Sequencing (NGS) genomics secondary-analysis pipelines using AWS Step Functions an…☆38Updated last year
- Seven Bridges Genomics aligner/caller debugging and analysis tools☆13Updated 6 years ago
- A collection of Python clients and accessory scripts for interacting with the Cromwell☆22Updated 2 years ago
- SEQSpark documentation☆18Updated 4 years ago
- ☆83Updated this week
- Linter rules for Nextflow DSL scripts☆30Updated last month
- Efficient handling of FASTQ files from Python☆51Updated 5 months ago
- Library of snakemake rules.☆12Updated 6 years ago
- CLI for interacting with Cromwell servers☆53Updated 10 months ago
- normalize, left-align, trim, validate and clean VCF files☆20Updated 9 years ago
- Software sets up and runs an genome sequencing analysis workflow using AWS Batch and AWS Step Functions.☆201Updated 4 years ago
- Portable WDL workflows for IDseq production pipelines☆31Updated 3 years ago
- Snakemake library for bioinformatics programs, with a focus on next-generation sequencing☆22Updated 9 years ago
- Examples for the Google Genomics Pipelines API.☆50Updated 7 years ago
- Bioinformatics workflows developed for and used on the St. Jude Cloud project.☆34Updated this week
- Workflows used for WGS data processing -- replaced by https://github.com/gatk-workflows/gatk4-genome-processing-pipeline☆57Updated 5 years ago
- HPG Aligner is an ultrafast and highly sensitive Next-Generation Sequencing (NGS) mapper which supoprts both DNA and RNA alignment☆34Updated 7 years ago
- Curated collection of open-source bioinformatics tools☆28Updated 6 years ago
- A false-positive filter for variants called from massively parallel sequencing☆29Updated 7 years ago
- Job Manager API and UI for interacting with asynchronous batch jobs and workflows.☆26Updated last month
- create a gemini-compatible database from a VCF☆56Updated 4 years ago