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
- 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 last month
- conda recipes for genomic data☆85Updated 3 years ago
- A fast Python library for VCF files leveraging Cython for speed.☆52Updated 6 years ago
- AWS Quick Start Team☆24Updated 3 months ago
- normalize, left-align, trim, validate and clean VCF files☆20Updated 9 years ago
- BaseSpace Python SDK☆37Updated 3 years ago
- Software sets up and runs an genome sequencing analysis workflow using AWS Batch and AWS Step Functions.☆201Updated 4 years ago
- a wee tool for random access into BGZF files.☆84Updated 6 years ago
- Amazon Web Services Operator Interface☆68Updated last month
- Toil workflows for common genomic pipelines☆33Updated 5 years ago
- WDL plugin for pytest☆48Updated last year
- CLI for interacting with Cromwell servers☆53Updated 9 months ago
- Snakemake library for bioinformatics programs, with a focus on next-generation sequencing☆22Updated 8 years ago
- Library of snakemake rules.☆12Updated 6 years ago
- Parse Illumina sample sheets with Python☆50Updated 9 months ago
- [Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows☆41Updated last year
- A collection of Python clients and accessory scripts for interacting with the Cromwell☆22Updated 2 years ago
- NextSeq specific bcl2fastq2 wrapper.☆53Updated 3 years ago
- Exon-exon splice junctions across SRA☆39Updated 3 years ago
- A novel pipeline framework to accelerate bioinformatics analysis☆29Updated last year
- Tools for analyzing 10X Genomics data☆42Updated 5 years ago
- DEPRECIATED! Please use nf-core/tools instead☆19Updated 6 years ago
- Workflows used for WGS data processing -- replaced by https://github.com/gatk-workflows/gatk4-genome-processing-pipeline☆57Updated 4 years ago
- UC Santa Cruz Computational Genomics Lab's Toil-based RNA-seq pipeline☆40Updated 4 years ago
- FireCloud Service Selector (FISS) -- Python bindings and CLI for FireCloud execution engine☆29Updated 10 months ago
- The integrated pipeline for Indel detection☆17Updated 6 years ago
- Python interface to the GenoLogics LIMS server via its REST API.☆11Updated 2 years ago