MultiQC_SAV is a plugin for MultiQC, leveraging the InterOp python API to generate the most used tables and graphs from the Illumina SAV
For more information about MultiQC, see http://multiqc.info
For more information about Illumina SAV, see the Illumina support page
Description
The MultiQC_SAV plugin parses the InterOp files in an Illumina Sequencer output directory and generates tables and graphs of the most important metrics
Example
An example report can be found here
Installation
This plugin can be installed using the following methods
- using
pip:
pip install --upgrade --force-reinstall git+https://github.com/MultiQC/MultiQC_SAV.git
- using
conda:
conda install -c bioconda multiqc_sav
- using
setuptools:
git clone https://github.com/MultiQC/MultiQC_SAV
cd MultiQC_SAV
python setup.py install
Usage
This plugin adds a QC module and searches for the RunInfo.xml and RunParameters.xml files. It tries to infer if all required files are present. No special params are needed.
Required files
The illumina directory should contain the following files the directory structure as dictated by the sequencer
illumina_dir
├── InterOp
│ ├── *.bin
├── RunInfo.xml
├── RunParameters.xml
Contributors
- Matthias De Smet @matthdsm, @CenterForMedicalGeneticsGhent
Release files for multiqc-sav 0.1.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| multiqc_sav-0.1.0.tar.gz | 12.6 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| multiqc_sav-0.1.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 24.6 kB
Release files / multiqc_sav-0.1.0.tar.gz
| Download URL | multiqc_sav-0.1.0.tar.gz |
|---|---|
| Size | 12.6 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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Transparency logRelease files / multiqc_sav-0.1.0-py3-none-any.whl
| Download URL | multiqc_sav-0.1.0-py3-none-any.whl |
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| Size | 12.0 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
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Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/6.1.0 CPython/3.13.7
|
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
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