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GitHub / NMRL / Ardetype
Pipeline allows to perform reference-guided de-novo assembly of bacterial genomes, starting from Illumina PE150 fastq files.
JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/NMRL%2FArdetype
Stars: 1
Forks: 0
Open Issues: 8
License: None
Language: Jupyter Notebook
Repo Size: 100 MB
Dependencies:
137
Created: almost 3 years ago
Updated: 7 months ago
Last pushed: 26 days ago
Last synced: 26 days ago
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Dependencies
- actions/checkout v3 composite
- actions/setup-python v3 composite
- aioeasywebdav ==2.4.0 test
- aiohttp ==3.8.1 test
- aiosignal ==1.2.0 test
- amply ==0.1.5 test
- appdirs ==1.4.4 test
- async-timeout ==4.0.2 test
- attmap ==0.13.2 test
- attrs ==21.4.0 test
- backports-functools-lru-cache ==1.6.4 test
- bcrypt ==3.2.2 test
- beautifulsoup4 ==4.11.1 test
- biopython ==1.78 test
- boto3 ==1.22.8 test
- botocore ==1.25.8 test
- brotlipy ==0.7.0 test
- bs4 ==0.0.1 test
- cachetools ==5.0.0 test
- cffi ==1.15.0 test
- charset-normalizer ==2.0.12 test
- configargparse ==1.5.3 test
- connection-pool ==0.0.3 test
- cryptography ==36.0.0 test
- cycler ==0.11.0 test
- datrie ==0.8.2 test
- decorator ==5.1.1 test
- defusedxml ==0.7.1 test
- docopt ==0.6.2 test
- docutils ==0.18.1 test
- dropbox ==11.30.0 test
- fastjsonschema ==2.15.3 test
- filechunkio ==1.8 test
- filelock ==3.6.0 test
- fonttools ==4.33.3 test
- frozenlist ==1.3.0 test
- ftputil ==5.0.3 test
- gitdb ==4.0.9 test
- gitpython ==3.1.27 test
- google-api-core ==2.5.0 test
- google-api-python-client ==2.47.0 test
- google-auth ==2.6.6 test
- google-auth-httplib2 ==0.1.0 test
- google-cloud-core ==2.2.2 test
- google-cloud-storage ==2.1.0 test
- google-crc32c ==1.1.2 test
- google-resumable-media ==2.1.0 test
- googleapis-common-protos ==1.56.0 test
- grpcio ==1.45.0 test
- httplib2 ==0.20.4 test
- idna ==3.3 test
- igraph ==0.9.9 test
- importlib-metadata ==4.11.3 test
- importlib-resources ==5.7.1 test
- iniconfig ==1.1.1 test
- jinja2 ==3.1.2 test
- jmespath ==1.0.0 test
- jsonschema ==4.5.1 test
- jupyter-core ==4.9.2 test
- kiwisolver ==1.4.2 test
- lxml ==4.9.0 test
- markupsafe ==2.1.1 test
- matplotlib ==3.5.1 test
- multidict ==6.0.2 test
- munkres ==1.1.4 test
- nbformat ==5.4.0 test
- networkx ==2.8 test
- numpy ==1.22.3 test
- oauth2client ==4.1.3 test
- packaging ==21.3 test
- pandas ==1.4.2 test
- paramiko ==2.10.4 test
- peppy ==0.31.2 test
- pillow ==9.0.1 test
- pip ==22.0.3 test
- pipreqs ==0.4.11 test
- plac ==1.3.5 test
- plotly ==5.6.0 test
- pluggy ==1.0.0 test
- ply ==3.11 test
- prettytable ==3.3.0 test
- protobuf ==3.20.0rc2 test
- psutil ==5.9.0 test
- pulp ==2.6.0 test
- py ==1.11.0 test
- pyasn1 ==0.4.8 test
- pyasn1-modules ==0.2.7 test
- pycparser ==2.21 test
- pygments ==2.12.0 test
- pynacl ==1.5.0 test
- pyopenssl ==22.0.0 test
- pyparsing ==3.0.8 test
- pyrsistent ==0.18.1 test
- pysftp ==0.2.9 test
- pysocks ==1.7.1 test
- pytest ==7.1.2 test
- python-dateutil ==2.8.2 test
- python-irodsclient ==1.1.3 test
- pytz ==2022.1 test
- pyu2f ==0.1.5 test
- pyyaml ==6.0 test
- qstat ==0.0.5 test
- ratelimiter ==1.2.0 test
- requests ==2.27.1 test
- retry ==0.9.2 test
- rsa ==4.8 test
- s3transfer ==0.5.2 test
- scipy ==1.8.0 test
- setuptools ==60.7.1 test
- setuptools-scm ==6.4.2 test
- six ==1.16.0 test
- slacker ==0.14.0 test
- smart-open ==6.0.0 test
- smmap ==3.0.5 test
- snakemake ==7.6.1 test
- soupsieve ==2.3.2.post1 test
- stone ==3.3.1 test
- stopit ==1.1.2 test
- tabulate ==0.8.9 test
- tenacity ==8.0.1 test
- texttable ==1.6.4 test
- tomli ==2.0.1 test
- toposort ==1.7 test
- traitlets ==5.1.1 test
- typing-extensions ==4.2.0 test
- ubiquerg * test
- unicodedata2 ==14.0.0 test
- uritemplate ==4.1.1 test
- urllib3 ==1.26.9 test
- wcwidth ==0.2.5 test
- wheel ==0.37.1 test
- wrapt ==1.14.1 test
- xmltodict ==0.12.0 test
- yarg ==0.1.9 test
- yarl ==1.7.2 test
- yte ==1.2.2 test
- zipp ==3.8.0 test