Module: ContactNetworkEdge

The ContactNetworkEdge module represents an edge in the ContactNetwork module. See the source code to see what is defined by the abstract class.

List of Implementations

• ContactNetworkEdge_NetworkX
  • Implements the ContactNetworkEdge module using the NetworkX Python package
  • Requirements:
    • NetworkX
  • Config Parameters:
    • None
• ContactNetworkEdge_PANGEA
  • Wrapper for PANGEA.HIV.sim
  • Requirements:
    • PANGEA.HIV.sim
    • Must use ContactNetworkEdge_PANGEA module
    • Must use ContactNetworkGenerator_PANGEA module
    • Must use ContactNetworkNode_PANGEA module
    • Must use ContactNetwork_PANGEA module
    • Must use NodeEvolution_PANGEA module
    • Must use NodeSample_PANGEA module
    • Must use SeedSelection_PANGEA module
    • Must use SeedSequence_PANGEA module
    • Must use SequenceEvolution_PANGEA module
    • Must use SourceSample_PANGEA module
    • Must use TransmissionNodeSample_PANGEA module
    • Must use TransmissionTimeSample_PANGEA module
  • Config Parameters
    • Rscript_path: The path to your Rscript executable (or simply Rscript if it is in your PATH variable)
    • pangea_yr.start: See PANGEA documentation
    • pangea_yr.end: See PANGEA documentation
    • pangea_seed: See PANGEA documentation
    • pangea_s.INC.recent: See PANGEA documentation
    • pangea_s.INC.recent.len: See PANGEA documentation
    • pangea_s.PREV.min: See PANGEA documentation
    • pangea_s.PREV.max: See PANGEA documentation
    • pangea_s.PREV.base: See PANGEA documentation
    • pangea_s.INTERVENTION.start: See PANGEA documentation
    • pangea_s.INTERVENTION.mul: See PANGEA documentation
    • pangea_s.ARCHIVAL.n: See PANGEA documentation
    • pangea_s.MODEL: See PANGEA documentation
    • pangea_s.PREV.max.n: See PANGEA documentation
    • pangea_s.INTERVENTION.prop: See PANGEA documentation
    • pangea_epi.model: See PANGEA documentation
    • pangea_epi.acute: See PANGEA documentation
    • pangea_epi.intervention: See PANGEA documentation
    • pangea_epi.dt: See PANGEA documentation
    • pangea_epi.import: See PANGEA documentation
    • pangea_root.edge.fixed: See PANGEA documentation
    • pangea_v.N0tau: See PANGEA documentation
    • pangea_v.r: See PANGEA documentation
    • pangea_v.T50: See PANGEA documentation
    • pangea_wher.mu: See PANGEA documentation
    • pangea_wher.sigma: See PANGEA documentation
    • pangea_bwerm.mu: See PANGEA documentation
    • pangea_bwerm.sigma: See PANGEA documentation
    • pangea_er.gamma: See PANGEA documentation
    • pangea_er.gtr: See PANGEA documentation
    • pangea_sp.prop.of.sexactive: See PANGEA documentation
    • pangea_report.prop.recent: See PANGEA documentation
    • pangea_dbg.GTRparam: See PANGEA documentation
    • pangea_dbg.rER: See PANGEA documentation
    • pangea_index.starttime.mode: See PANGEA documentation
    • pangea_startseq.mode: See PANGEA documentation
    • pangea_seqtime.mode: See PANGEA documentation