mgkit

View on PyPIReverse Dependencies (0)

0.5.7 mgkit-0.5.7-cp38-cp38-macosx_10_9_x86_64.whl

Wheel Details

Project: mgkit
Version: 0.5.7
Filename: mgkit-0.5.7-cp38-cp38-macosx_10_9_x86_64.whl
Download: [link]
Size: 264383
MD5: 5bb1a38be166a490e4e1c6f256af2033
SHA256: 20cf6bdf9272c723d44c9c2a0d1f3e7576fa4fb219f6409a48e2c98f280882f9
Uploaded: 2021-10-25 14:43:10 +0000

dist-info

METADATA

Metadata-Version: 2.1
Name: mgkit
Version: 0.5.7
Summary: Metagenomics Framework
Author: Francesco Rubino
Author-Email: rubino.francesco[at]gmail.com
Home-Page: https://github.com/frubino/mgkit
License: GPL2+
Keywords: metagenomics library biology bioinformatics snps gff fasta
Classifier: Development Status :: 5 - Production/Stable
Classifier: Environment :: Console
Classifier: Intended Audience :: Developers
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: GNU General Public License v2 or later (GPLv2+)
Classifier: Natural Language :: English
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python :: 3
Classifier: Topic :: Scientific/Engineering
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Requires-Dist: numpy (>=1.19.2)
Requires-Dist: pandas (>=1.1.3)
Requires-Dist: tqdm (>=4.0)
Requires-Dist: semidbm (>=0.5.1)
Requires-Dist: pymongo (>=3.1.1)
Requires-Dist: pyarrow (>=2.0.0)
Requires-Dist: scipy (>=1.5.2)
Requires-Dist: matplotlib (>=2)
Requires-Dist: msgpack-python (>=0.5.6)
Requires-Dist: statsmodels (>=0.12)
Requires-Dist: networkx
Requires-Dist: future
Requires-Dist: requests
Requires-Dist: PyVCF (>=0.6.0)
Requires-Dist: click (>=6)
Requires-Dist: tables (>=3.4.2)
Requires-Dist: pysam (>=0.14)
Requires-Dist: enum34; python_version < "3.4"
[Description omitted; length: 2607 characters]

WHEEL

Wheel-Version: 1.0
Generator: bdist_wheel (0.35.1)
Root-Is-Purelib: false
Tag: cp38-cp38-macosx_10_9_x86_64

RECORD

Path Digest Size
mgkit/__init__.py sha256=HeZxuDQ5KUmq3o6kQ0Z2IrFw5VNRlftRNr-70zaozic 1410
mgkit/align.py sha256=Jn5ZXNyd0kSwxVC14P0IKRStwLGBnBTFi5WtDMdf2JM 14881
mgkit/consts.py sha256=RJQK8u7NfUjYXkEGIlkwsGgkcYz7ZsoNVjx6gT2lxgU 1040
mgkit/graphs.py sha256=yYvw-KNysaKxlqEhZxVefrutqgBJSPU3aBIMQMEEm9w 22190
mgkit/kegg.py sha256=2p1MwL0J-P7IlB2qHJo_sX6Emy38KXcGJ9WSBdjfrFY 30023
mgkit/logger.py sha256=USikCNmm9YLaRdClOUcBG3vc7Uqy5Z1wTVClcXHKPHc 2104
mgkit/simple_cache.py sha256=3z_Nd1lAEdYq4fAoPnytkhDyIjW7UdXpIksAn69adCQ 430
mgkit/taxon.py sha256=ORTCXOwX7_8xQErcdqAyescMdYH48DdUT_oeisWf5F0 46347
mgkit/counts/__init__.py sha256=zKWPpXuieD6bWdH2Fi8UgXvWsF5jLSFaYoi681IHoxg 43
mgkit/counts/func.py sha256=msG1pD1fi9uG9zfWpSy8ylh5GD7Apm3OBTp29MeAW1o 23674
mgkit/counts/glm.py sha256=xJfqUQoKcqWUwOOeYRjII7o7NcfOqH5-3PjeIcI4gxE 5884
mgkit/counts/scaling.py sha256=i7QEre5bmhhMBCNbju66xBfpsmqVGxQqopdN8kSI5dU 1797
mgkit/db/__init__.py sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU 0
mgkit/db/dbm.py sha256=G-YMmBPuA1u8zwuCrCTIyRmGGo3XVZzyngFjBUPoc_Q 2449
mgkit/db/mongo.py sha256=fbiIMP_tntNVfjzw7IFIsOOlqZSPZWBEYfXStdOxEy0 5390
mgkit/filter/__init__.py sha256=lj5p_TXeCJ8o0LIECCf1wexVFdIYk3jXdA1zAFw_ZXU 78
mgkit/filter/common.py sha256=Ypih0B8ATB_sUaIwiR1Idu34pKZvtRrcy7pjHdOa2lA 132
mgkit/filter/gff.py sha256=K7CHuEwb54k7ZP3aTwL4ikhEKba0ubQZnaM4K9jJ3lg 8360
mgkit/filter/lists.py sha256=CosxHuxpBC5beNPj_LgBtKu6S3zMeUX7NP5XSJ-FFJc 894
mgkit/filter/reads.py sha256=wXyvnqFVeN-OywLk1thFZXjlm7kjkfbzSisbVYbeMBo 1889
mgkit/filter/taxon.py sha256=X-r9b8ly4S5cNUy22QWCJQPpvPqRDEeh8vI3Z2E9tFc 2994
mgkit/io/__init__.py sha256=uaszWMnnRf50p2YVwW8ZNAloiztolgxKC9oUML-cOrE 144
mgkit/io/blast.py sha256=7VIbnk0kRx_qWASN_LuGatDI3sAtV9OIK9HpoGxE2L4 11390
mgkit/io/fasta.py sha256=Sf9209FWmWgdBaV09F6g47jP88qjWeaf_5EVA_if2cM 5109
mgkit/io/fastq.py sha256=KMtQB_3y-YBp6ANxdLyJG0gyfkGSE7WFaIcZSXKgK5o 8467
mgkit/io/gff.py sha256=WMONGpRtf-qY3w4jSvbbRsJHlv5fXyaEE7xF0EH1asQ 69580
mgkit/io/glimmer.py sha256=FRjZd1aXKBkLDOGiiVJojwMVr_isQEE693gCUre9new 1065
mgkit/io/snpdat.py sha256=qyfcjj2Sacg3Hr_hQD0TgPBu-2wrEX7L4KGvTTM2oHA 9234
mgkit/io/uniprot.py sha256=bqOAHD55RK9YJrgF-cFC6cxG-HrIBqsa7Qybt8Y86bE 3819
mgkit/io/utils.py sha256=LDMuUUuCnZMX0U9wl2ZF9seffKufFeaVzlRzBzoM5MQ 5276
mgkit/mappings/__init__.py sha256=vi0oQnQUIuAUgteQnbIVA-oCReILLGKy6DwxtttQp5g 148
mgkit/mappings/cazy.py sha256=YVnCcA3Z_NzFP513O_f686Q4zrN6LCTj-511B3kZl_E 335
mgkit/mappings/eggnog.py sha256=x1vwDZ8Qf2aKuEdYGyYtFgoLl01xJdeiCNzjgaXZGag 7459
mgkit/mappings/enzyme.py sha256=8Ir6UShIZpEosQe68hMQJLImdY_BFLeXBSYrsCPoUqo 7360
mgkit/mappings/go.py sha256=C_V_leqR9-wlKD0O5_U4k0pzCX7ABu-5hAyL-4xJhb0 131
mgkit/mappings/pandas_map.py sha256=pDFts9q9eT3uzXBc5tNCEDY92evnuvTf9kxR4SN0XiM 3294
mgkit/mappings/taxon.py sha256=0UA6e3kCW-RB_nB8xV7LLZ0J1Ghj_qn0Vsy8iWa7oEQ 1123
mgkit/mappings/utils.py sha256=qBC1wQImuX2iYRhwSUD0zvVSGXwTZW2SnUSynttPxWY 2490
mgkit/net/__init__.py sha256=tpgP4akHujVJNVGhfI8NxWt5Esdq_Pdchh89HcWHi4U 113
mgkit/net/embl.py sha256=BkZqByYf7hzFtfi2alyvxde9jD3VoPkk2XWn59rbZsg 10064
mgkit/net/pfam.py sha256=4Ke81Rt2_sH3QR0UZsO1joyAuuggeth8w-yTKn751mQ 1384
mgkit/net/uniprot.py sha256=9EKv9UTiT5q4IjwGY6c_zzadPKhhk4Fz_3Ivoea8m5c 12257
mgkit/net/utils.py sha256=F31etTwc3QFWKyV93ZhQhxbE2ciOynKfq5LrmDM0b1A 1949
mgkit/plots/__init__.py sha256=FP1rEpKvI1kIkzBd6lemDzgW12E_5OfiBQHK2QvXutc 209
mgkit/plots/abund.py sha256=IOkutFiocX3FJPBPFoqWAoj0Lu4I3B59o8IQAPq2128 8179
mgkit/plots/boxplot.py sha256=QO-0CT1rqIV9W_uAIG0GXiJrdeeRJSi-HkTCSgf_qm0 13668
mgkit/plots/colors.py sha256=zaCIYoOamFku8dpsnY6mqM73mR8rshabCpTgYML7GzI 748
mgkit/plots/heatmap.py sha256=sf1KHkXoQ4gJfZZCOGUI2MmummM8WjHe2Z5u7O5RNqE 8992
mgkit/plots/unused.py sha256=ivHWhk0bv9j0KOe9aZX-gBvA_POGhO98H4ItoxU5H4A 12215
mgkit/plots/utils.py sha256=4hOzxKKG4gVL0yuTOi-ByDTEANq0-2xqaiUKtfdDd3Y 2005
mgkit/snps/__init__.py sha256=HE2NiC3v85vXlrKNP_BR5pLvxsf3upNoeCMmmH1fzKo 379
mgkit/snps/classes.py sha256=OPznLWF2NtphOyGJMjdVxO-_aEihlR6kAXyOCRxv-Ao 11099
mgkit/snps/conv_func.py sha256=Tox14Q3uHyqsyWLrcG2EvthlnRnAkVa6STgL_xWPWRg 6806
mgkit/snps/filter.py sha256=K9qB0VyhLc7B6I2V-t90awh2fbxVyQjzdu0tV1dwFw4 3723
mgkit/snps/funcs.py sha256=ocB97SJRDPiBRt9JPq8Hro9-Ow_jhYOjeBhlUjlVz9U 14205
mgkit/snps/mapper.py sha256=AT8J7J7YTNF2KyRbOgQ9FO2l0d0E6kk0FUgWmUx_UlE 2399
mgkit/utils/__init__.py sha256=pw_BxuzYIGBBZcaOcRnE8NcdcgpdHPk8gzAYN5pmE1A 56
mgkit/utils/_sequence.cpython-38-darwin.so sha256=LTlpFrBnhYSPGJB-Vs2ba-_S3jp0uuInCrd6F5qG8qA 120936
mgkit/utils/common.py sha256=Cyes8FIT8Q5EalcMFIiX3p_WQp-_iE9lprwewBHfF2c 7415
mgkit/utils/dictionary.py sha256=ABt4IsTAITp3IuP8gq8uS_oaMKFi6e1SmyWAyalU_zw 14078
mgkit/utils/sequence.py sha256=d5lsqePAbf3qXNzbK4j_AjHX8vZVlMlIZw9K6FTimC8 29672
mgkit/utils/trans_tables.py sha256=UMh-jDVNB0FrSypNzuwhiR-8mT5emhhpulm7qslkqPA 2938
mgkit/workflow/__init__.py sha256=ZW7XWXZz6bJmwR2PDdCxXxHaIb6RetSSyXsRi3FoZWg 87
mgkit/workflow/add_gff_info.py sha256=vgBPy_-IMk12gdjDTv8XVVMxyH8wQ2eSHu824F1rSCk 46293
mgkit/workflow/alg_utils.py sha256=oRGNRq7Nbg8EaWmJChd10affMqXOXj-U5GfwOC3mCMA 3008
mgkit/workflow/blast2gff.py sha256=BZblBxVz0NufGPPgwg7rLlPaSuPnYUq6waY99Dh16_s 9957
mgkit/workflow/count_utils.py sha256=nImKKkg19nZmupYuiwO-6VlwNCQM4k8WkeZC7at1YyI 6221
mgkit/workflow/dict_utils.py sha256=ydPrNtQHRnitrVDUwb0UVW5ggqfS2nRx8nha14-8YPU 4473
mgkit/workflow/edit_gff.py sha256=MYCffqblGFzd5OUhcMVFDHZlMX4bcjG5tzDETZMDkdw 16670
mgkit/workflow/extract_gff_info.py sha256=r_sYlrxIajf_4TPuUu5c_1gfLwny6wI5ItGGi_z_FlM 10874
mgkit/workflow/fasta_utils.py sha256=oBnXPtQ4YtU0dojccSkjgk_1iqNJ_yY3m_uAeJMqGYs 13644
mgkit/workflow/fastq_utils.py sha256=dOupss63ngOV3GwD8xPmWOaJAQywp7X4C-q2cg7T5aY 9422
mgkit/workflow/filter_gff.py sha256=RQS63_7WMCqhdQ5-ABhNWqUlcs6HykPDJQj_Vkc5h3c 21568
mgkit/workflow/hmmer2gff.py sha256=QxSHeSs9vv-agkTVlcXlAb6UI4Yv1LNAo6M9o0tXIgE 5599
mgkit/workflow/json2gff.py sha256=HHt0Hk_vIV30cHu3qAUSSR4L-4Sb5s6_VAZCNxv35OU 1689
mgkit/workflow/pnps_gen.py sha256=8fwzjWbD_6EFwF0b2lqiFlfDfnkbkqdRgSLWNuCzz_w 26992
mgkit/workflow/sampling_utils.py sha256=SbqfjccIPML4uVgrgfEUMwnnbxBcmlD9DZRY1HwuOMw 14806
mgkit/workflow/snp_parser.py sha256=xjY5TPCJrxSkeEr4-tD0zyuQby1J2efr5GarXV7Rfxg 10810
mgkit/workflow/taxon_utils.py sha256=1lJ_8SwAatJc8oBZn7i_SlrXvWh1P4kst3tKNMcqoKg 34180
mgkit/workflow/utils.py sha256=q96NGP7wo68lJg_DUn-FKTD5pG_a0KOPmYgRrpE44TU 2998
mgkit-0.5.7.data/scripts/download-ncbi-taxa.sh sha256=34IZORArJugKrF6ifJhDGpcpxJXVHUDUmz0N_RsHz-w 1148
mgkit-0.5.7.data/scripts/download-taxonomy.sh sha256=xS6t4BJENZx9d6GqfyHc9PDGYbhHYPkxDK_CFi9VPws 864
mgkit-0.5.7.data/scripts/download-uniprot-taxa.sh sha256=cI4FowQ5tuVkc0wLpaEUR-cr0GDO5RCjFtk33CCr-cI 719
mgkit-0.5.7.data/scripts/sort-gff.sh sha256=LqmEyCkgaZAXeizpwOCtqmcOmklJiHk7XJS59NWUtVw 85
mgkit-0.5.7.dist-info/LICENSE sha256=qA23Zhbbr46jJjeLC4rRE3O_avA2RjcKNj7u-AvYsoA 18618
mgkit-0.5.7.dist-info/LICENSE.txt sha256=OX-G_ttTNT27KMqB3n3C4howGCvEZIzU6hQk39TK2jk 17711
mgkit-0.5.7.dist-info/METADATA sha256=3JVtfO7C8XJ5jR0pcrpj9kmup83eLA61j4vbeaLDeVc 3991
mgkit-0.5.7.dist-info/WHEEL sha256=ffyMch4mpikNEgQnSO9KuZDwpDUZYYRvETsDK3Qu-_A 109
mgkit-0.5.7.dist-info/entry_points.txt sha256=6d5y5ZVtmzaxFVSqScfGj6qoufMKa_tOSgmA4mXvVIs 733
mgkit-0.5.7.dist-info/top_level.txt sha256=MKXVAaRMuxnflTMsqP6179Js-ehjpk1hWXGkHZJEN-c 6
mgkit-0.5.7.dist-info/RECORD

top_level.txt

mgkit

entry_points.txt

add-gff-info = mgkit.workflow.add_gff_info:main
alg-utils = mgkit.workflow.alg_utils:main
blast2gff = mgkit.workflow.blast2gff:main
count-utils = mgkit.workflow.count_utils:main
dict-utils = mgkit.workflow.dict_utils:main
edit-gff = mgkit.workflow.edit_gff:main
fasta-utils = mgkit.workflow.fasta_utils:main
fastq-utils = mgkit.workflow.fastq_utils:main
filter-gff = mgkit.workflow.filter_gff:main
get-gff-info = mgkit.workflow.extract_gff_info:main
hmmer2gff = mgkit.workflow.hmmer2gff:main
json2gff = mgkit.workflow.json2gff:main
pnps-gen = mgkit.workflow.pnps_gen:main
sampling-utils = mgkit.workflow.sampling_utils:main
snp_parser = mgkit.workflow.snp_parser:main
taxon-utils = mgkit.workflow.taxon_utils:main