1 file was added to this release more than 14 days after its initial publication. Inspect the release files before installing.
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Structural variant toolkit for benchmarking, annotating and more for VCFs
WIKI page has detailed documentation. See Updates on new versions.
Installation
Truvari uses Python 3.7 and can be installed with pip:
pip install Truvari
PyPi has a history of all versions available. Pip installs all requirements EXCEPT external tools needed for running some annotations. See anno for details.
To build and install Truvari from scratch:
python -m pip install --upgrade pip setuptools wheel
python setup.py sdist bdist_wheel
pip install dist/Truvari-<version>.tar.gz
Where <version> is which version you just built.
See tags/ for a list of all available versions.
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 -r reference.fasta -o output_dir/
Truvari Commands
- bench - Performance metrics from comparison of two VCFs
- stats - Basic SV relevant VCF stats
- consistency - Consistency report between multiple VCFs
- anno - Annotate a VCF
More Information
Find more details and discussions about Truvari on the WIKI page.
1 maintainer
Metadata
1 maintainer
Release files for truvari 2.0.0
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File added late
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While project maintainers occasionally add legitimate files to an existing release, late additions can also indicate a security compromise.
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Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| Truvari-2.0.0.tar.gz | 31.7 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| Truvari-2.0.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 79.4 kB
Release files / Truvari-2.0.0.tar.gz
| Download URL | Truvari-2.0.0.tar.gz |
|---|---|
| Size | 31.7 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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BLAKE2b-256 checksum How to use checksums |
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| Upload date | |
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| Uploaded via |
twine/2.0.0 pkginfo/1.5.0.1 requests/2.22.0 setuptools/41.6.0 requests-toolbelt/0.9.1 tqdm/4.36.1 CPython/3.6.7
|
Release files / Truvari-2.0.0-py3-none-any.whl
File added late
This file was uploaded more than 14 days after the first file in this release.
While project maintainers occasionally add legitimate files to an existing release, late additions can also indicate a security compromise.
We recommend inspecting the release file before installing.
| Download URL | Truvari-2.0.0-py3-none-any.whl |
|---|---|
| Size | 47.7 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
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|
|
BLAKE2b-256 checksum How to use checksums |
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| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/2.0.0 pkginfo/1.5.0.1 requests/2.22.0 setuptools/41.6.0 requests-toolbelt/0.9.1 tqdm/4.36.1 CPython/3.6.7
|
