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Table of contents:

  1. Overview

  2. Performance Plots

  3. Performance of RNAsubopt - scored higher in this pairwise comparison

  4. Performance of PETfold_2.0(seed) - scored lower in this pairwise comparison

  5. Compile and download dataset for RNAsubopt & PETfold_2.0(seed) [.zip] - may take several seconds...


Overview

Metric RNAsubopt PETfold_2.0(seed)
MCC 0.887 > 0.866
Average MCC ± 95% Confidence Intervals 0.883 ± 1.074 > 0.868 ± 0.471
Sensitivity 0.897 > 0.845
Positive Predictive Value 0.881 < 0.891
Total TP 52 > 49
Total TN 4275 < 4279
Total FP 13 < 19
Total FP CONTRA 3 > 2
Total FP INCONS 4 = 4
Total FP COMP 6 < 13
Total FN 6 < 9
P-value 0.0

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Performance plots


  1. Comparison of performance of RNAsubopt and PETfold_2.0(seed). Positive Predictive Value (PPV) is plotted against sensitivity. Each dot represents a single test of each method. See tables below for raw data (individual counts for RNAsubopt and PETfold_2.0(seed)).

  2. Comparison of performance of RNAsubopt and PETfold_2.0(seed). Positive Predictive Value (PPV) is plotted against sensitivity. Each dot represents a single test of each method. See tables below for raw data (individual counts for RNAsubopt and PETfold_2.0(seed)).

  3. Comparison of average Matthews Correlation Coefficients (MCCs) for RNAsubopt and PETfold_2.0(seed). The whiskers correspond to 95% confidence intervals (CIs). 'n' denotes the number of MCCs used to calculate average MCCs and CIs. See tables below for raw data (individual counts for RNAsubopt and PETfold_2.0(seed)).

  4. Comparison of average Matthews Correlation Coefficients (MCCs) for RNAsubopt and PETfold_2.0(seed). The whiskers correspond to 95% confidence intervals (CIs). 'n' denotes the number of MCCs used to calculate average MCCs and CIs. See tables below for raw data (individual counts for RNAsubopt and PETfold_2.0(seed)).

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Performance of RNAsubopt - scored higher in this pairwise comparison

1. Total counts & total scores for RNAsubopt

Total Base Pair Counts
Total TP 52
Total TN 4275
Total FP 13
Total FP CONTRA 3
Total FP INCONS 4
Total FP COMP 6
Total FN 6
Total Scores
MCC 0.887
Average MCC ± 95% Confidence Intervals 0.883 ± 1.074
Sensitivity 0.897
Positive Predictive Value 0.881
Nr of predictions 2

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2. Individual counts for RNAsubopt [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
3J3V_B

5S_rRNA links to Rfam database...

0.80 0.81 0.79 22 2628 12 2 4 6 5
3W1K_J

tRNA-Sec links to Rfam database...

0.97 0.97 0.97 30 1647 1 1 0 0 1

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Performance of PETfold_2.0(seed) - scored lower in this pairwise comparison

1. Total counts & total scores for PETfold_2.0(seed)

Total Base Pair Counts
Total TP 49
Total TN 4279
Total FP 19
Total FP CONTRA 2
Total FP INCONS 4
Total FP COMP 13
Total FN 9
Total Scores
MCC 0.866
Average MCC ± 95% Confidence Intervals 0.868 ± 0.471
Sensitivity 0.845
Positive Predictive Value 0.891
Nr of predictions 2

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2. Individual counts for PETfold_2.0(seed) [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
3J3V_B

5S_rRNA links to Rfam database...

0.90 0.89 0.92 24 2630 14 0 2 12 3
3W1K_J

tRNA-Sec links to Rfam database...

0.83 0.81 0.86 25 1649 5 2 2 1 6

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Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.

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