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╚═╝ ╚═╝ ╚═╝ ╚═════╝ ╚═══╝ ╚═╝ ╚═╝╚═╝ ╚═╝╚═╝
Toolkit for benchmarking, merging, and annotating Structrual Variants
WIKI page has detailed documentation.
See Updates on new versions.
Read our Paper for more details.
Installation
Truvari uses Python 3.6+ and can be installed with pip:
python3 -m pip install Truvari
For details and more installation options, see Installation on the wiki.
Quick Start
Each sub-command contains help documentation. Start with truvari -h to see available commands.
The current most common Truvari use case is for structural variation benchmarking:
truvari bench -b base.vcf.gz -c comp.vcf.gz -f reference.fasta -o output_dir/
Truvari Commands
- bench - Performance metrics from comparison of two VCFs
- collapse - Collapse possibly redundant VCF entries
- anno - Add SV annotations to a VCF
- vcf2df - Turn a VCF into a pandas DataFrame
- consistency - Consistency report between multiple VCFs
- divide - Divide a VCF into independent parts
- segment - Normalization of SVs into disjointed genomic regions
More Information
Find more details and discussions about Truvari on the WIKI page.
1 maintainer
Metadata
1 maintainer
Release files for truvari 3.2.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| Truvari-3.2.0.tar.gz | 47.9 kB | Details |
Built distributions (wheels)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| Truvari-3.2.0-py3.9.egg | Legacy Egg format | - | - | Details |
| Truvari-3.2.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 252.3 kB
Release files / Truvari-3.2.0.tar.gz
| Download URL | Truvari-3.2.0.tar.gz |
|---|---|
| Size | 47.9 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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| Upload date | |
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Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.0 CPython/3.9.12
|
Release files / Truvari-3.2.0-py3.9.egg
| Download URL | Truvari-3.2.0-py3.9.egg |
|---|---|
| Size | 141.8 kB |
| Tags | Egg |
|
SHA-256 checksum How to use checksums |
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No |
| Uploaded via |
twine/4.0.0 CPython/3.9.12
|
Release files / Truvari-3.2.0-py3-none-any.whl
| Download URL | Truvari-3.2.0-py3-none-any.whl |
|---|---|
| Size | 62.5 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
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Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.0 CPython/3.9.12
|
