A set of standalone application and pipelines dedicated to NGS (new generation sequencing) analysis
Project description
Python version: | 3.7, 3.8, 3.9 |
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Documentation: | |
Issues: | |
How to cite: | Citations are important for us to carry on developments. For Sequana library (including the pipelines), please use Cokelaer et al, (2017), ‘Sequana’: a Set of Snakemake NGS pipelines, Journal of Open Source Software, 2(16), 352, JOSS DOI doi:10.21105/joss.00352 For the genome coverage tool (sequana_coverage): Dimitri Desvillechabrol, Christiane Bouchier, Sean Kennedy, Thomas Cokelaer http://biorxiv.org/content/early/2016/12/08/092478 For Sequanix: Dimitri Desvillechabrol, Rachel Legendre, Claire Rioualen, Christiane Bouchier, Jacques van Helden, Sean Kennedy, Thomas Cokelaer. Sequanix: A Dynamic Graphical Interface for Snakemake Workflows Bioinformatics, bty034, https://doi.org/10.1093/bioinformatics/bty034 Also available on bioRxiv (DOI: https://doi.org/10.1101/162701) |
Sequana includes a set of pipelines related to NGS (new generation sequencing) including quality control, variant calling, coverage, taxonomy, transcriptomics. We also ship Sequanix, a graphical user interface for Snakemake pipelines.
pipeline or tools | Latest Pypi version | Test passing |
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https://github.com/sequana/sequana_pipetools | ||
https://github.com/sequana/sequana-wrappers | Not on pypi | |
https://github.com/sequana/demultiplex | ||
https://github.com/sequana/fastqc | ||
https://github.com/sequana/mapper | ||
https://github.com/sequana/pacbio_qc | ||
https://github.com/sequana/ribofinder | ||
https://github.com/sequana/rnaseq | ||
https://github.com/sequana/variant_calling |
Please see the documentation for an up-to-date status and documentation.
Contributors
Maintaining BioServices would not have been possible without users and contributors. Each contribution has been an encouragement to pursue this project. Thanks to all:
Changelog
Version | Description |
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0.14.0 |
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0.13.X |
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0.12.7 |
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0.12.6 |
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0.12.5 |
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0.12.4 |
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Project details
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