版本变化1.14.1 - - - - - - - - - - - - - - - - - - - - - - - - o MS_keggNetwork返回交互亚型(如激活)而不是类型(例如PPrel)。感谢希尔帕Harshan注意到这个!1.7.12版本的变化- - - - - - - - - - - - - - - - - - - - - - - - o MetaboSignal集成KEGG代谢和信号网络监管在OmniPath交互报告和TRRUST。阿新功能:“MS2_ppiNetwork()”和“MS2_mergeNetworks ()”。1.7.8版本的变化- - - - - - - - - - - - - - - - - - - - - - - - o MetaboSignal包含了一个新的功能:“MS_getPathIds()允许检索标识符(id) KEGG代谢和信号通路的一个给定的有机体。o”MS_keggNetwork()现在可以变换KEGG id为Entrez基因id(使用expand_genes = TRUE, convert_entrez = TRUE)。o”MS_filterNetwork()”更名为“MS_topologyFilter”。版本是1.7.2变化- - - - - - - - - - - - - - - - - - - - - - - - o重大变化函数名:o”MetaboSignal_matrix()”更名为“MS_keggNetwork“o”MetaboSignal_distances()”更名为“MS_distances“o”MetaboSignal_NetworkCytoscape()”更名为“MS_shortestPathsNetwork“o”MS_ToCytoscape()”更名为“MS_exportCytoscape“o”MS_ChangeNames()”更名为“MS_ChangeNames“o”MS_FilterNetwork()”更名为“MS_FilterNetwork“o”MS_FindKEGG()”更名为“MS_keggFinder”啊“MS_GetKEGG_GeneID”更名为“MS_convertGene“o”MS_NodeBW()”更名为“MS_NodeBW“o”MS_ReplaceNode()”更名为“MS_ReplaceNode“o”MS_RemoveNode()”更名为“MS_RemoveNode“o”MS_FindMappedNodes()”更名为“MS_FindMappedNodes”o新功能:o”MS_tissueFilter ()”:允许过滤网络基于组织表达数据。o函数删除:o”MS_interactionType ():交互可以现在直接从MS_keggNetwork检索。 o Functionality changes: o "MS_keggNetwork()": output networks are now formatted as 3-column matrices, where the third column indicates interaction type. Unlike, MetaboSignal_matrix, “MS_keggNetwork()" does not perform network filtering by tissue expression data. Tissue filtering is now done with "MS_tissueFilter()". Also, the compound nodes of the networks are not only metabolites, but also drugs and glycans. o "MS_distances()", "MS_shortestPathNetworks()": use network nodes (i.e. KEGG IDs) as source nodes, not entrez IDs or gene symbols. However, the function "MS_convertGene()" allows to easily convert entrez IDs or gene symbols into KEGG IDs. CHANGES IN VERSION 1.7.1 ----------------------- o Significant improvements in the tissue-filtering option from "MetaboSignal_matrix()". o Cytoscape .txt files are now exported with a header. CHANGES IN VERSION 1.1.6 ----------------------- o MetaboSignal includes a new function: "MS_interactionType()". This function allows getting the interaction subtype between signaling nodes. The output matrix generated by this function can be used for "MetaboSignal_NetworkCytoscape()" and also for "MS_GetShortestpaths()". o "MS_GetShortestpaths()" has been modified and now the output shortest path(s) can be represented as a network-table (i.e. 2-column matrix).