About PEPPAN PEPPAN (Phylogeny Enhanced Pipeline for PAN-genome) is a pipeline that can construct a pan-genome from thousands of genetically diversified bacterial genomes. PEPPAN implements a combination of tree- and synteny-based approaches to identify and exclude paralogous genes, as well as similarity-based gene predictions that support consistent annotations of genes and pseudogenes in individual genomes.
Citation If you use PEPPAN please cite the pre-print in BioRxiv:
Z Zhou, M Achtman (2020) "Accurate reconstruction of the pan- and core- genomes of bacteria with PEPPA" bioRxiv, doi: https://doi.org/10.1101/2020.01.03.894154 <https://doi.org/10.1101/2020.01.03.894154>_
installation <docs/source/usage/installation.rst>_quickstart <docs/source/usage/quickstart.rst>_parameters <docs/source/usage/parameters.rst>_inputs <docs/source/usage/inputs.rst>_outputs <docs/source/usage/outputs.rst>_
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Release files for PEPPAN 1.0.6
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
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| PEPPAN-1.0.6.tar.gz | 32.6 MB | Details |
Release files / PEPPAN-1.0.6.tar.gz
| Download URL | PEPPAN-1.0.6.tar.gz |
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| Size | 32.6 MB |
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twine/3.1.1 pkginfo/1.5.0.1 requests/2.23.0 setuptools/47.3.0.post20200616 requests-toolbelt/0.9.1 tqdm/4.46.0 CPython/3.8.3
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