Main tool : tostadas
Additional tools installed via conda:
- pip
- libgcc-ng=12.1.0=h8d9b700_16
- libstdcxx-ng=12.1.0=ha89aaad_16
- liftoff=1.6.3=pyhdfd78af_0
- numpy=1.22.4=py39hc58783e_0
- packaging=21.3=pyhd3eb1b0_0
- pandas=1.4.2=py39h1832856_2
- python-dateutil=2.8.2=pyhd8ed1ab_0
- python_abi=3.9=2_cp39
- pytz=2022.1=pyhd8ed1ab_0
- pyvcf3=1.0.3=pyhdfd78af_0
- pyyaml=6.0=py39hb9d737c_4
- readline=8.1=h46c0cb4_0
- requests=2.28.0=pyhd8ed1ab_1
- samtools=1.15.1=h1170115_0
- setuptools=62.3.2=py39hf3d152e_0
- simplejson=3.17.6=py39hb9d737c_1
- tbb=2021.5.0=h924138e_1
- tbl2asn=25.7=h9ee0642_1
- tk=8.6.12=h27826a3_0
- tzdata=2022a=h191b570_0
- ujson=5.3.0=py39h5a03fae_0
- urllib3=1.26.9=pyhd8ed1ab_0
- wgs2ncbi=1.1.2=pl5262hdfd78af_1
- wheel=0.37.1=pyhd8ed1ab_0
- xz=5.2.5=h516909a_1
- yaml=0.2.5=h7f98852_2
- openpyxl=3.0.10
Full documentation: https://github.com/CDCgov/tostadas
tostadas is a nextflow workflow for annotation and submission of MonkeyPox Virus consensus sequences. The resultant container is not intended to run independently of the workflow.