nuget
An algorithm module for generates KEGG metabolite network from any given kegg compound id list.
SMRUCC.genomics.Model.Network.KEGG 1.0.9762.7562.
01 Namespaces
SMRUCC.genomics.Model.Network.KEGG
| Type | Summary | Members |
|---|---|---|
| CompoundSupportsEvidence | 假若直接根据KO对应的Reaction进行网络的装配的话,可能会造成生成的网络非常的密集的现象出现 因为一个reaction发生的基础是存在必须要有相应的代谢物和酶的存在 所以在这个模块之中会尝试依据代谢物是否缺失来判断某一个反应网络之中的边是否存在 | 1 |
| GraphBackground | create background network graph model for kegg data | 1 |
| KOLinks | 这个模型是从蛋白的角度来看待个体和系统模块之间的关系的 | 5 |
| PathwayMapNetwork | A helper module for pathway map graph object pathway as node and the edge link in this graph model is based on the KO term intersection result. | 3 |
| PathwayNetwork | 1 | |
| SimpleBuilder | 3 |
SMRUCC.genomics.Model.Network.KEGG.Dunnart
| Type | Summary | Members |
|---|---|---|
| Constraint | 3 | |
| Extensions | 1 | |
| GraphObject | json model for visualize of the cola network graph | 5 |
| Group | 4 | |
| Link | 2 | |
| Node | 9 | |
| NodeOffset | 2 |
SMRUCC.genomics.Model.Network.KEGG.PathwayMaps
| Type | Summary | Members |
|---|---|---|
| MapAssignment | 因为同一种代谢物或者代谢反应或者酶分子可能会出现在多个代谢途径之中 则这个模块就是通过将目标类型在代谢途径中的归属通过覆盖度进行简单计算 | 1 |
| MaxGraphAsignment | assign of the pathway category to compounds/KO by max graph evaluation | 0 |
| ReferenceMap | 3 |
SMRUCC.genomics.Model.Network.KEGG.ReactionNetwork
| Type | Summary | Members |
|---|---|---|
| BuilderBase | 7 | |
| EdgeFilter | 2 | |
| Extensions | 3 | |
| GetGeneSymbols | 1 | |
| MapCache | Mapping between the kegg compound tuple and reaction id, KO id, etc. | 6 |
| NetworkExpansion | Contains algorithm code for KEGG compound reaction network expansion | 1 |
| ReactionClassNetwork | 2 | |
| ReactionClassTable | 7 | |
| ReactionLinkFilter | the given reaction should contains at least one compound on each side | 1 |
| ReactionNetworkBuilder | 这个模块是针对一组给定的特定的代谢物编号列表 生成对应的小分子代谢物互做网络图 | 4 |
| ReactionTable | A simplify data model of KEGG reaction object. | 8 |
| SlotCompleteFilter | all compound should be exists for the required reaction model | 1 |
| Styles | 1 |