update

app.R

@@ -66,6 +66,7 @@ time = reshape2::melt(time,id.vars = c('slide')) %>% rename(method=variable,time
   mutate(method = alter_method_name(method)) %>%
   left_join(human_slides)
 method_color_table = fread('method_colors.csv');method_colors = method_color_table$color;names(method_colors) = method_color_table$method
+rank_threshold = fread('rank_threshold.csv')
 
 na.omit(time)
 

rank_threshold.csv

@@ -0,0 +1,21 @@
+Method,Language,Rank order,Rank Variable Name,SVG Threshold Name,Threshold Value
+SpaGene,R,Ascending,zval,adjp,adjp<0.05
+HRG,R,NA,gene_name,NA,NA
+SINFONIA,Python,Descending,moransi_scores,svg_boolean,svg_boolean == TRUE
+SpaGFT,Python,Ascending,svg_rank,"pvalue, cutoff_gft_score","pvalue<0.05, cutoff_gft_score == True"
+singlecellHaystack,R,Ascending,log.p.vals,p.value.threshold in Function,p.value.threshold=1e-10
+Spanve,Python,Ascending,fdrs,fdrs,rejects==True & fdrs < 0.05
+BSP,Python,Ascending,p_values,p_values,p_values < 0.05
+SPARK-X,R,Ascending,adjustedPval,adjustedPval,adjustedPval <0.05
+Moran's I,Python,Descending,abs_z_sim,pval_sim_fdr_bh,pval_sim_fdr_bh < 0.05
+SpaGCN,Python,Ascending,pvals_adj,pvals_adj,pvals_adj < 0.05
+HEARTSVG,R,Ascending,rank,p_adj,p_adj<0.05
+RayleighSelection,R,Ascending,R0,q0,q0<0.05
+sepal,Python,Descending,sepal_score,sepal_score,Top 10% sepal_score
+SOMDE,Python,Descending,LLR,qval,qval < 0.05
+scGCO,Python,Ascending,fdr,fdr,fdr < 0.01
+BinSpect,R,Descending,score,adj.p.value,adj.p.value<0.05
+SpatialDE2,Python,Descending,test_stat,padj,padj < 0.001
+SpatialDE,Python,Descending,LLR,qval,qval < 0.05
+SPARK,R,Ascending,adjusted_pvalue,adjusted_pvalue,adjusted_pvalue<0.05
+nnSVG,R,Ascending,rank,padj,padj<0.05