DeepShape: estimating isoform-level ribosome abundance and distribution with Ribo-seq data

BMC Bioinformatics

Table 1 Performance of shape model on genes with different lengths

Length (codons)	RiboShape V3^a	RiboShape V4^a	RiboShape V7^a	Shape model (DeepShape)
<=250	0.61	0.53	0.45	0.61
251–500	0.67	0.62	0.52	0.63
501–750	0.61	0.58	0.50	0.59
751–1000	0.52	0.49	0.46	0.57
> 1001	0.54	0.51	0.46	0.58

^aReported in RiboShape study [4]. The V3 and V4 spaces are highly smoothed subspaces of the original ribosome distribution profile after wavelet transformation. V3 is smoother than V4. The V7 space is also smoothed, but most similar to the original space. RiboShape performs better in a lower subspace

ISSN: 1471-2105