Apclusterv: Clustering viral genomes with Affinity Propagation
This software works in Python3.
Dependencies:
Pandas
Numpy
Networkx
Scipy
vConTACT2 (bioconda channel)
cluster_one (http://www.paccanarolab.org/cluster-one/)
Usage:
apcluster.sh input_gene_fasta gene_to_contig_map out_dir
input_gene_fasta is the protein sequence file output from Prodigal gene prediciton for viral contigs. An example gene_contig_map can be found in data/
Parameter configuration:
configure parameters in config file.
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Metadata
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Release files for aptest 1.1.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| aptest-1.1.0.tar.gz | 29.5 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| aptest-1.1.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 65.5 kB
Release files / aptest-1.1.0.tar.gz
| Download URL | aptest-1.1.0.tar.gz |
|---|---|
| Size | 29.5 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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twine/4.0.2 CPython/3.7.16
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Release files / aptest-1.1.0-py3-none-any.whl
| Download URL | aptest-1.1.0-py3-none-any.whl |
|---|---|
| Size | 36.1 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
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Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.2 CPython/3.7.16
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