{"added":null,"apiVersion":1,"behindSince":null,"buildDepends":[],"categories":["biology","python"],"comment":"Python binding for Prodigal, an ORF finder for genomes and metagenomes","compare":null,"dependentCount":null,"description":"Pyrodigal is a Python module that provides bindings to Prodigal using Cython.\n\nFeatures:\nThe library now features everything from the original Prodigal CLI:\n* run mode selection: Choose between single mode, using a training sequence\n  to count nucleotide hexamers, or metagenomic mode, using pre-trained data\n  from different organisms (prodigal -p).\n* region masking: Prevent genes from being predicted across regions\n  containing unknown nucleotides (prodigal -m).\n* closed ends: Genes will be identified as running over edges if they are\n  larger than a certain size, but this can be disabled (prodigal -c).\n* training configuration: During the training process, a custom translation\n  table can be given (prodigal -g), and the Shine-Dalgarno motif search can\n  be forcefully bypassed (prodigal -n)\n* output files: Output files can be written in a format mostly compatible\n  with the Prodigal binary, including the protein translations in FASTA\n  format (prodigal -a), the gene sequences in FASTA format (prodigal -d),\n  or the potential gene scores in tabular format (prodigal -s).","flavors":[],"html":"https://daemonports.org/dragonfly/biology/py-pyrodigal/","kind":"port","lastUpdate":null,"license":["GPLv3"],"maintainer":"yuri@FreeBSD.org","name":"py311-pyrodigal","newest":false,"newestVersion":"3.7.1","noVulnData":false,"origin":"biology/py-pyrodigal","otherSystems":[{"maintainer":"yuri@FreeBSD.org","newest":true,"origin":"biology/py-pyrodigal","path":"/biology/py-pyrodigal/","system":"FreeBSD","version":"3.7.1"},{"maintainer":"yuri@FreeBSD.org","newest":true,"noVulnData":true,"origin":"biology/py-pyrodigal","path":"","system":"HardenedBSD","version":"3.7.1"},{"maintainer":"yuri@FreeBSD.org","newest":true,"noVulnData":true,"origin":"biology/py-pyrodigal","path":"","system":"GhostBSD","version":"3.7.1"}],"packages":null,"pkgName":"py311-pyrodigal-3.6.3","related":null,"repository":"DPorts","requiredBy":[],"requiredByCount":0,"runDepends":["lang/python311"],"status":null,"system":"dragonfly","systemLabel":"DragonFly","version":"3.6.3","versions":null,"vulnerabilities":null,"www":"https://pyrodigal.readthedocs.io/en/stable/"}