Table 1.

Comparison of visualization features and tools for GWAS and fine-mapping results

Features and tools	Flashfm-ivis	echolocatoR	PAINTOR-CANVIS	PheGWAS	LcusZoom.js	Cgmisc	LDlink	Assocplots	IntAssoPlot
Input data in/from different formats/methods	+
Display fine-mapping results	+	+	+
Multi-panel comparison with linked data	+	+						+
Joint SNP effects (fine-mapping model PPs)	+
Interactive features/tools	+			+	+		+	+
Download outputs/plots	+	+	+	+			+
A standalone web or R package	+			+	+		+
Regional association plot of GWAS results	+	+	+	+	+	+	+	+	+
Scatter plot of SNP PPs (MPP) only	+a	+	+
Regional association plot with SNP PPs	+
LD with lead SNP	+	+			+	+	+b		+
LD heatmap and plot	+		+				+b		+
Link between GWAS and LD matrix	+								+
Integrated display of multiple GWAS	+			+				+	+
No programming knowledge required	+				+		+
Allow iPad or touch screen	+
Can be used with other R/Python packages	+	+		+	+	+
Reference		Schilder et al., 2022	Kichaev et al., 2017	George et al., 2020	Boughton et al., 2021; Pruim et al., 2010	Kierczak et al., 2015	Machiela and Chanock, 2015	Khramtsova and Stranger, 2017	He et al., 2020

Note: A ‘+’ indicates that the tool has the feature, possibly with a few modifications.

^a Flashfm-ivis integrates the SNP PPs with the regional association plots.

^bLDlink only uses built-in reference panels.