Package index
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MiCo-class - Microbial Community Class
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MiCoAl-class - Microbial Community Alignment Class
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ac_A1R12_1 - ac_A1R12_1
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ac_A1R12_2 - ac_A1R12_2
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ac_A3R04_1 - Example Data from MiSoSoup
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cit_A1R12_1 - cit_A1R12_1
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cit_A1R12_2 - Example Data from MiSoSoup
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compareAlignments() - Compare Alignments
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.alignMultiple() - Multiple Alignment of MiCo (Microbial Community) Objects
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.alignPairwise() - Pairwise Alignment of MiCo (Microbial Community) Objects
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.rxnsPerLevel() - Get Count of Reactions Per Level of Alignment
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.scoreAlignment() - Scoring Algorithm for MiCoAl Objects
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findEdges() - Get All Edges of a Community
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getCo() - Get the Community
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getEdges() - Get Edges From a MiCo (Microbial Community) Object
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getFlux() - Get Fluxes from MiCo (Microbial Community) Object
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getMet() - Get Metabolites
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getSpecies() - Get Species From a MiCo (Microbial Community) Object
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makeSynMiCo() - Generate Random Synthetic Microbial Communities
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misosoup - Example Data from MiSoSoup
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newMiCo() - Constructor Function for MiCo (Microbial Community) Objects
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newMiCoAl() - Constructor for Microbial Community Alignment Objects
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pivotMiCo() - Functions to Change the orientation of MiCo Input Data
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plotAlignmentHeatmap() - MiCoAl Heatmap
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plotAlignmentNetwork() - MiCoAl Network Plot
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show(<MiCo>) - Show method for Microbial Community objects
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show(<MiCoAl>) - Show method for Microbial Community Alignment Objects