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ship-plasmid

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0.2.6 ship_plasmid-0.2.6-py3-none-any.whl

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Project: ship-plasmid
Version: 0.2.6
Filename: ship_plasmid-0.2.6-py3-none-any.whl
Download: [link]
Size: 104631
MD5: 53c399ce58b8653cfa4a0d337769afa0
SHA256: 523a6a304970efc52c95d48d3ab6d1c0d1f125077b918a3707ad5aefac8b4ad9
Uploaded: 2024-01-18 03:45:22 +0000

dist-info

METADATA · WHEEL · RECORD · entry_points.txt

METADATA

Metadata-Version: 2.1
Name: ship-plasmid
Version: 0.2.6
Summary: Finds regions with evidence of HGT between plasmids and groups plasmids according to evolutionary dynamics.
Author-Email: Marco Teixeira <mcarvalh[at]broadinstitute.org>
Project-Url: Home, https://github.com/AbeelLab/plasmidHGT
Project-Url: Source, https://github.com/AbeelLab/plasmidHGT
Classifier: License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+)
Requires-Python: >=3.8
Requires-Dist: bcbio-gff (==0.6.9)
Requires-Dist: biopython (==1.79)
Requires-Dist: joblib (==1.2.0)
Requires-Dist: markov_clustering (==0.0.6.dev0)
Requires-Dist: matplotlib (==3.6.1)
Requires-Dist: networkx (==2.8.6)
Requires-Dist: numpy (==1.23.3)
Requires-Dist: pandas (==1.4.4)
Requires-Dist: pymc (==4.2.2)
Requires-Dist: pyvis (==0.2.1)
Requires-Dist: pyyaml (==6.0)
Requires-Dist: scikit-learn (==1.1.2)
Requires-Dist: scipy (==1.9.1)
Requires-Dist: tqdm (==4.64.1)
[No description]

WHEEL

Wheel-Version: 1.0
Generator: flit 3.9.0
Root-Is-Purelib: true
Tag: py3-none-any

RECORD

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ship_plasmid/__init__.py sha256=4ECzfw6nRZ9BLyY58XHiuBgjR-806KmVNdoPle6-KcQ 170
ship_plasmid/conserved_region_stats.py sha256=5fu7ea3cXbEn-LVzmcJzsZUd_QXRrR2-xVZRtzwLqBg 13332
ship_plasmid/meta.yaml sha256=9XI_8t5KJ6DsK5EG45vQJewClnerSzL25cDGAc6YWYU 1322
ship_plasmid/pangenome_analysis.py sha256=oA-qhBVb9GXCTwiitIM3EU1NKygZA9bC-VGZQj613M0 8020
ship_plasmid/pipeline.py sha256=Y2bmsigPUX-Fx6BJgCgoKSgQrQ44SUJi_mJ_1KvMat8 4147
ship_plasmid/pipeline_networks.sh sha256=Y18zjF2JMbqbNWXkVTpj8ZoPI3GfXX333hurXJC6eVw 363
ship_plasmid/plot_networks.py sha256=jWU4qqPQQEOwvigZzW2ajzlWUpODsHhnKTcIV8AOX7Y 9661
ship_plasmid/ship.py sha256=i0vU9fUn_X9liViiqzYRX_XO_7HFOUXoNHf7_ISDqCk 7782
ship_plasmid/annotations/__init__.py sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU 0
ship_plasmid/annotations/databases.py sha256=b-zkaDXv8k1uiX3OwSAiSQYQg5g-moxIAKRpFnp41kM 3494
ship_plasmid/annotations/fasta_handler.py sha256=SB7lVpbWvnWalw0edNjoMjwprKh6l9K9vK2N7QwOcGk 8075
ship_plasmid/annotations/prokka.py sha256=6OBGHsNjm1v6oc3f7rqXK8jbkL4QMvI22qZIukU4FLI 3046
ship_plasmid/configs/phylo_config.py sha256=MWoepZC7UnxjLqJNyaiq7Fak05WjM_1BEYQQGCMtT2Q 461
ship_plasmid/utils/__init__.py sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU 0
ship_plasmid/utils/amrfinder.py sha256=nIG273aWK8gga2xSpPPSHi9EA-SP7MaY4ZHxvT47K50 1160
ship_plasmid/utils/base_cluster.py sha256=xvaCHvFmeD9HOUYd3K73k1fRSmVoNrAZVOZv3HX0wiE 6443
ship_plasmid/utils/cdhit.py sha256=Uf20epbF9lcipvyJWHN4svVnUV6UACgyZWCtfzybwFM 1081
ship_plasmid/utils/cluster_images.py sha256=ZDSLzC5s8pfe-X_0oNJJWUG-ib7f5GOkwWacxJAYBGI 48685
ship_plasmid/utils/clustering.py sha256=gzC6r5mtwkjiuBqo5403dM6bVTNBGctWzKkSgwv8zqI 23112
ship_plasmid/utils/core_genes.py sha256=EcIiIoYgRjd30Y_bFZDzmOlWIuA3Eg1sMv50KHGmlKw 18627
ship_plasmid/utils/files.py sha256=3J_2jgeNiJs0sXP0RHqYWzd1U_sjx4gP0wUao6-hRB0 3969
ship_plasmid/utils/genome.py sha256=TeWwtUhOrzts-dquujyhimTqciiEqFkZng75V6z5xSc 28432
ship_plasmid/utils/interpretation.py sha256=Dm3Baur1ujFDbOew7mnLlMucwkXnFgFOZBd3TFUXPg0 3530
ship_plasmid/utils/jaccard.py sha256=YRM6MvLvGaFfzNRy56jYsjpKCvRWdKhzoctLpess4fE 1041
ship_plasmid/utils/markov_cluster.py sha256=Tb5pw94UvqnAJKBG2YbzyfFd6lWnHCuAy2lgwzCRX5c 16327
ship_plasmid/utils/motifs.py sha256=pRP76FkqJYnyXMZgXk7NTCqzaLfLxo06_wJYoqVM_8E 42064
ship_plasmid/utils/pangenome.py sha256=eL3_t4GZYDYzvPul2bibZD0zjvcjZoOZlDJwYtsSmxw 7852
ship_plasmid/utils/phylogeny.py sha256=E_wreB0YBCFJpjxc29MEIwILM84-SmOvQgfc-HcQHT4 29553
ship_plasmid/utils/plasmid_typing.py sha256=Vv-6oIh43yioaAusdfLJ0z5_dTMQJaEuNVzTbD8biLY 7659
ship_plasmid/utils/proteins.py sha256=APus698XG3-kz-qxL4brv-nelQyLhBnvBzPjJrdt-WQ 10717
ship_plasmid-0.2.6.dist-info/entry_points.txt sha256=EHyRoXNgLMNLsiKxUufP_U_28A3sdeAkYAmI4UWl6MA 42
ship_plasmid-0.2.6.dist-info/LICENSE sha256=ixuiBLtpoK3iv89l7ylKkg9rs2GzF9ukPH7ynZYzK5s 35148
ship_plasmid-0.2.6.dist-info/WHEEL sha256=EZbGkh7Ie4PoZfRQ8I0ZuP9VklN_TvcZ6DSE5Uar4z4 81
ship_plasmid-0.2.6.dist-info/METADATA sha256=8_czCYyo7urDWPuYG4kFNwFuenAuzMk5nh-TuM37T7E 920
ship_plasmid-0.2.6.dist-info/RECORD — —

entry_points.txt

[console_scripts]
ship = ship_plasmid:main