Skip to main content

Table 5 Comparisons of the results obtained in Second Trial

From: A fuzzy method for RNA-Seq differential expression analysis in presence of multireads

Results filtered by adjusted p-value < 0.05 and abs(log2(FC)) > 0.5

TopHat (unique) & cuffdiff

TohHat (rescue) & cuffdiff

Unique & DESeq2

RSEM & DESeq2

Centroid & DESeq2

Unique & edgeR

RSEM & edgeR

Centroid & edgeR

TopHat(unique) & cuffdiff

56

36

2

2

2

   

TopHat(rescue) & cuffdiff

36

36

1

1

1

   

Unique & DESeq2

2

1

9

7

5

   

RSEM & DESeq2

2

1

7

19

6

 

3

 

Centroid & DESeq2

2

1

5

6

12

1

 

1

Unique & edgeR

    

1

1

 

1

RSEM & edgeR

   

3

  

4

 

Centroid & edgeR

    

1

1

 

1

  1. Even in this case, the comparison of DE analyses show a significant disagreement on the selection of DE genes. The values on the diagonal (in bold) are the results obtained from each method
Back to article page

BMC Bioinformatics

ISSN: 1471-2105

Contact us