Manananggal - a novel viewer for alternative splicing events

BMC Bioinformatics

Table 1 Comparison of Manananggal to other visualization methods for alternative splicing events

	Manananggal	IGV	SpliceSeq	DEXSeq
Input	BIGWIG + COUNT_FILE	BAM	fastq	BAM
Organism	Human/Mouse^a	All	All?	All
Interactive	✓	✓	✓	(✗)
Unexpressed isoforms can be hidden	✓	✗	✗	(✗)
Coverage plots are available to spot differential expression	✓	✓	✗	✓
Indication of overlapping antisense transcripts	✓	✓	✗	(✗)
gene/transcript structure	full	full	reduced	reduced
introns	compressed	to scale	compressed	to scale
Indicates AS exons	✓	✗	✓	✓
Allows group comparisons	✓	✗	✓	✓

^aIn principle Manananggal should also work with other organisms. Some functions, such as the cross-reference table are not available for other organisms and thus users would need to use gene IDs rather than symbols to query genes
The DEXSeq plot is an R function that could be modified to add some of the missing features

ISSN: 1471-2105