base2genomics / batchitLinks
simple jobs submission via command-line for AWS batch
☆80Updated 6 years ago
Alternatives and similar repositories for batchit
Users that are interested in batchit are comparing it to the libraries listed below
Sorting:
- Workflow Description Language compiler for the DNAnexus platform☆42Updated 2 years ago
- Parse Illumina sample sheets with Python☆50Updated last year
- Curated collection of open-source bioinformatics tools☆28Updated 6 years ago
- Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integr…☆71Updated 2 months ago
- Snakemake library for bioinformatics programs, with a focus on next-generation sequencing☆22Updated 9 years ago
- Load numpy arrays and HDF5 files from VCF (variant call format)☆31Updated 8 years ago
- Toil workflows for common genomic pipelines☆33Updated 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
- Please see https://github.com/chanzuckerberg/czid-workflows for the latest version of CZ ID workflows.☆27Updated 3 years ago
- Chanjo provides a better way to analyze coverage data in clinical sequencing.☆50Updated 3 weeks ago
- Wrapper for RTG's vcfeval; DEPRECATED!☆21Updated 9 years ago
- Linter rules for Nextflow DSL scripts☆33Updated last month
- The open source version of the Melbourne Genomics Health Alliance Exome Sequencing Pipeline☆33Updated 7 years ago
- conda recipes for genomic data☆84Updated 4 years ago
- Import and run CWL workflows on DNAnexus (alpha)☆13Updated 7 years ago
- Workflows I find helpful for fungal genome annotation☆21Updated 2 years ago
- ☆36Updated 5 years ago
- a simple read-only sequence database, designed for short reads☆65Updated last year
- prioritize effects of variant annotations from VEP, SnpEff, et al.☆34Updated last year
- A fast Python library for VCF files leveraging Cython for speed.☆52Updated 7 years ago
- Efficient handling of FASTQ files from Python☆51Updated last month
- Retrieve data in genomic intervals with a Python interface for tabix.☆82Updated 8 years ago
- a pileup library that embraces the huge☆43Updated 5 years ago
- Streaming relation (overlap, distance, KNN) of (any number of) sorted genomic interval sets. #golang☆47Updated 5 years ago
- Convert CWL to WDL☆17Updated 9 years ago
- ☆43Updated 9 years ago
- BaseSpace Python SDK☆37Updated 4 years ago
- create a gemini-compatible database from a VCF☆55Updated 4 years ago
- A configurable de novo assembly pipeline☆28Updated 9 years ago
- SMBL - SnakeMake Bioinformatics Library. Automatic installation of bioinformatics software in your SnakeMake pipelines.☆23Updated 8 years ago