Red panda: a novel method for detecting variants in single-cell RNA sequencing

BMC Genomics

Table 3 Breakdown by tool of variants present in more than one cell

Present in:	FreeBayes	GATK-HC	GATK-UG	Platypus	Red Panda	Intersection of all tools
> = 2/55 cells	2922	2463	1991	2947	3159†	96*
> = 5/55 cells	970	894	693	324	1051	18
> = 10/55 cells	416	398	309	161	565	0
> = 23/55 of cells	129	122	84	66	257	0
> = 42/55 of cells	38	24	27	22	98	0

The number of cells in which a variant was found was broken down into five groups: presence in at least 2, 5, 10, 23, or 42 of cells. Additionally, the variants identified by all tools were checked for their presence in the five groups listed above. The variants submitted for Sanger sequencing were drawn from the two groups labeled with a cross (†) and an asterisk (*)

ISSN: 1471-2164