The Gencove CLI
What is Gencove?
Gencove is a high-throughput, cost-effective platform for genome sequencing and analysis, enabling a wide array of genomics applications across industries. Furthermore, it is the only enterprise analytics platform for low-pass whole genome sequencing (lpWGS).
The Gencove command-line interface (CLI) can be used to easily access the Gencove platform.
Main Features
It is most often used for:
- Uploading FASTQ files for analysis
- Downloading analysis results which include the following:
- Sequence (
.fastq.gz) - Alignment (
.bam,.bai) - Imputation (
.vcf.gz,.vcf.gz.tbi,.vcf.gz.csi)
- Sequence (
- Assigning metadata to Gencove samples
Before filing a bug report, please refer to the following link. Bugs should be reported here.
Installation
# install via PyPI
pip install gencove
# updating to latest version
pip install -U gencove
Documentation
Online documentation (with examples) is available at docs.gencove.com
API reference for publicly available endpoints: API Reference
Comprehensive CLI Documentation available: CLI Reference
1 maintainer
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