Gethyperpathway

Author: ykbt

August undefined, 2024

WebContribute to pma22wustl/Transcriptional-and-Immune-landscape-of-cardiac-sarcoidosis development by creating an account on GitHub. Webtmp <- getHyperPathway (data = n, object = cellcallObj, cella_cellb = i, Org = species) return (tmp) }) names (pathway.list) <- colnames (cellcallObj@data$expr_l_r_log2_scale) saveRDS (cellcallObj, file.path (out_dir, 'cellcallObj.rds')) saveRDS (pathway.list, file.path (out_dir, 'pathway.list.rds')) } withProgress ( {

ShellyCoder/cellcall source: R/GSEA.R - rdrr.io

WebJan 2, 2024 · getHyperPathway: enrich communication relation on the pathway; LR2TF: get score of Triple relation corresponding specific... LRT.Dimplot: get score of Triple relation corresponding specific... mylog2foldChange.diy: calculate foldchange for each celltype; mylog2foldChange.diy.casecontrol: calculate foldchange between case and control for … goldie hawn smoking cigarettes in her 70\u0027s

cellcall/getSignificantPathway.R at master · ShellyCoder/cellcall

WebAPI and function index for ShellyCoder/cellcall. CellInter-class: The CellInter Class The CellInter object is the center of... ConnectProfile: create a Cellwave objects counts2normalized_10X: transform count to CPM counts2normalized_smartseq2: transform count to RPKM or TPM within Hsapiens and Mmusculus CreateNichConObject: create a … WebAug 23, 2024 · Hi millersan, The input data may conflict with the circlize R package. Could you upload the data object@data[[slot]] and all your parameters in the function … WebNov 21, 2024 · getHyperPathway(data, cella_cellb, IS_core = TRUE, Org = "Homo sapiens") Arguments. data: a dataframe of communication score with row LR and column cellA-cellB. cella_cellb: explore the LR between sender cellA and receiver cellB, eg: "A … head camera waterproof

CreateNichConObject : create a Cellwave objects

ConnectProfile: create a Cellwave objects in shouguog/cellcallEXT ...

WebJan 29, 2024 · getHyperPathway: enrich communication relation on the pathway; LR2TF: get score of Triple relation corresponding specific... LRT.Dimplot: get score of Triple relation corresponding specific... mylog2foldChange.diy: calculate foldchange for each celltype; plotBubble: plot bubble graph; ridgeplot.DIY: plot ridge graph Webtmp <- getHyperPathway(data = n, object = mt, cella_cellb = i, Org="Homo sapiens") return(tmp)}) Error in parse(text = elt) : :1:7: unexpected symbol 1: Using an ^ Does … goldie hawn shortsWebgetHyperPathway: enrich communication relation on the pathway; LR2TF: get score of Triple relation corresponding specific... LRT.Dimplot: get score of Triple relation corresponding … goldie hawn significant other

"WebApr 21, 2016 · Khani, A., M. Hickman, and H. Noh, 2015. A hyperpath, as defined by Nguyen and Pallottino 1988, is an acyclic subnetwork with at least one link connecting … " - Gethyperpathway

Gethyperpathway

WebgetHyperPathway: enrich communication relation on the pathway; LR2TF: get score of Triple relation corresponding specific... LRT.Dimplot: get score of Triple relation corresponding specific... mylog2foldChange.diy: calculate foldchange for each celltype; plotBubble: plot bubble graph; ridgeplot.DIY: plot ridge graph Webinferring cell-cell communication from scRNA-seq of ligand-receptor - cellcall/NAMESPACE at master · ShellyCoder/cellcall

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WebR/step1_TransConnectProfile.R defines the following functions: TransCommuProfile. CellInter-class: The CellInter Class The CellInter object is the center of... ConnectProfile: create a Cellwave objects counts2normalized_10X: transform count to CPM counts2normalized_smartseq2: transform count to RPKM or TPM within Hsapiens and … WebgetHyperPathway: enrich communication relation on the pathway LR2TF: get score of Triple relation corresponding specific... LRT.Dimplot: get score of Triple relation corresponding specific... mylog2foldChange.diy: calculate foldchange for each celltype plotBubble: plot bubble graph ridgeplot.DIY: plot ridge graph

WebOct 25, 2024 · CreateNichConObject(), TransCommuProfile(), getHyperPathway(), LR2TF(), CreateObject_fromSeurat() So manual set the parameter Org = "Mus musculus", we will reduce such duplicate settings in future versions and replace them with a global setting. Sorry for this inconvience. Thanks ! WebJan 29, 2024 · getHyperPathway: enrich communication relation on the pathway; LR2TF: get score of Triple relation corresponding specific... LRT.Dimplot: get score of Triple relation corresponding specific... mylog2foldChange.diy: calculate foldchange for each celltype; plotBubble: plot bubble graph; ridgeplot.DIY: plot ridge graph

WebR/codeAllCaseControl_v1.5.R defines the following functions: ViewInterCircos TransCommuProfile CreateNichConObject trans2tripleScore plotBubble getGSEAplot LR2TF getGSEA mylog2foldChange.diy.casecontrol mylog2foldChange.diy getHyperPathway viewPheatmap getDistanceKEGG getCorrelatedGene ConnectProfile … WebR/sankey3D.R defines the following functions: LRT.Dimplot. CellInter-class: The CellInter Class The CellInter object is the center of... ConnectProfile: create a Cellwave objects counts2normalized_10X: transform count to CPM counts2normalized_smartseq2: transform count to RPKM or TPM within Hsapiens and Mmusculus CreateNichConObject: create a …

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WebAug 17, 2024 · CellCall provides a variety of functions including intercellular communication analysis, pathway activity analysis and a rich suite of visualization tools to intuitively … head candy bluetooth headphonesWebSuper-hyperroutes were types of hyperspace routes that served as the primary routes of the galaxy. Such hyperspace routes were the Corellian Run, Corellian Trade Spine, Hydian … goldie hawn sitcomWebNov 21, 2024 · getHyperPathway: enrich communication relation on the pathway; LR2TF: get score of Triple relation corresponding specific... LRT.Dimplot: get score of Triple relation corresponding specific... mylog2foldChange.diy: calculate foldchange for each celltype; plotBubble: plot bubble graph; ridgeplot.DIY: plot ridge graph goldie hawn showWebThe ShellyCoder/cellcall package contains the following man pages: CellInter-class ConnectProfile counts2normalized_10X counts2normalized_smartseq2 CreateNichConObject getCorrelatedGene getDistanceKEGG getForBubble getGSEA getGSEAplot getHyperPathway LR2TF LRT.Dimplot mylog2foldChange.diy plotBubble … head candy blow dryerWebgetHyperPathway: enrich communication relation on the pathway; LR2TF: get score of Triple relation corresponding specific... LRT.Dimplot: get score of Triple relation … head cancer symptoms nhsWebJan 29, 2024 · getHyperPathway: enrich communication relation on the pathway; LR2TF: get score of Triple relation corresponding specific... LRT.Dimplot: get score of Triple relation corresponding specific... mylog2foldChange.diy: calculate foldchange for each celltype; plotBubble: plot bubble graph; ridgeplot.DIY: plot ridge graph goldie hawn smoking cigarettes in her 70\\u0027sWebDocumented in getGSEA mylog2foldChange.diy. #' calculate foldchange for each celltype #' @param inData a dataframe of gene expression #' @param cell.type the cell type which you want to calculate the foldchange #' @param method default is "median",eg "median" or "mean" #' @param probs the quantile for median calculate #' @return the foldchange ... head cancers