AKRUP
AKRUP: Ancestral Karyotype Reconstruction Universal Pipeline
| Author | wangjiaqi |
| wangjiaqiky@163.com | |
| License | BSD |
Description
Include "bottom-up" inferences of ancestral karyotypes and "top-down" inferences of ancient chromosome evolutionary trajectories
Installation
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Pypi
pip install AKRUP
The AKRUP requires the following dependencies :
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Python (>3.7) with matplotlib, biopython, click, numpy，pandas, and scipy libraries. Note that the current version no longer supports python 2.
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R with the ggridges and ggplot2 packages.
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perl with the BioPerl packages.
Dependent third party software that has been integrated：
| clustalw2 | Larkin et al., 2007 |
| ColinearScan | Wang et al., 2006 |
| blast+ | Camacho et al., 2009 |
Tips
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Default parameters, configuration files and usage instructions for all subroutines of the AKRUP software are provided. Please consult the documentation at the Wiki.
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Detailed user tutorials and test data are provided. Please consult the documentation on AKRUP-example.
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Provides ancestral karyotypes for multiple phylogenetic nodes of monocots. Please consult the documentation on monocots-karyotype-evolution.
Citations
If you use AKRUP for your work, please cite:
1 maintainer
Metadata
1 maintainer
Release files for AKRUP 1.0.5
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| AKRUP-1.0.5.tar.gz | 39.9 MB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| AKRUP-1.0.5-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 80.0 MB
Release files / AKRUP-1.0.5.tar.gz
| Download URL | AKRUP-1.0.5.tar.gz |
|---|---|
| Size | 39.9 MB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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Release files / AKRUP-1.0.5-py3-none-any.whl
| Download URL | AKRUP-1.0.5-py3-none-any.whl |
|---|---|
| Size | 40.2 MB |
| Tags | Python 3 |
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SHA-256 checksum How to use checksums |
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No |
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twine/4.0.2 CPython/3.8.2
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