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Table 2 Read placement accuracy on the simulated datasets

From: ASGAL: aligning RNA-Seq data to a splicing graph to detect novel alternative splicing events

Sample

Tool

Alignments

Perfectly mapped

Partially mapped

Differently mapped

5M

ASGAL

2,951,893

2,907,881 (98.51%)

34,047 (1.15%)

9965 (0.34%)

 

STAR

3,150,948

3,072,183 (97.50%)

76,599 (2.43%)

2166 (0.07%)

10M

ASGAL

5,960,322

5,879,604 (98.65%)

66,463 (1.11%)

14,255 (0.24%)

 

STAR

6,355,862

6,201,270 (97.56%)

150,373 (2.37%)

4219 (0.07%)

  1. For each considered Sample (5M and 10M) and for each considered Tool (ASGAL and STAR), the number of Alignments produced by each tool is shown along with the number of Perfectly Mapped alignments, i.e. the alignments which place all the read bases in the correct position, the number of Partially Mapped alignments, i.e. the alignments which place some (but not all) read bases in the correct position, and the number of Differently Mapped alignments, i.e. the alignments which place all the read bases in a position different from the one from which the read has been simulated
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BMC Bioinformatics

ISSN: 1471-2105

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