List of available comparison statistics generated by RBPBench (rbpbench compare):
Table: RBP motif hit statistics for combined ID "k562_eclip,human_v0.1,PUM1" (data ID, motif database ID, RBP ID) over different methods (method ID column).
| Method ID | # regions | # motif hits | % regions with motifs | % motif nucleotides | # motif hits per 1000 nt |
|---|---|---|---|---|---|
| dewseq_w100_s5 | 23 | 24 | 43.48 | 3.20 | 4.86 |
| clipper_idr | 32 | 8 | 18.75 | 2.69 | 3.84 |
Column IDs have the following meanings: Method ID -> method ID set for dataset (typically peak calling method ID), # regions -> number of peak regions used for motif search, # motif hits -> number of unique motif hits in peak regions (removed double counts), % regions with motifs -> percentage of peak regions with motif hits, % motif nucleotides -> percentage of unique motif nucleotides over effective peak region size (overlapping regions merged), # motif hits per 1000 nt -> number of motif hits over 1000 nt of called peak region size (overlapping regions NOT merged).
Table: RBP motif hit statistics for combined ID "k562_eclip,human_v0.1,PUM2" (data ID, motif database ID, RBP ID) over different methods (method ID column).
| Method ID | # regions | # motif hits | % regions with motifs | % motif nucleotides | # motif hits per 1000 nt |
|---|---|---|---|---|---|
| dewseq_w100_s5 | 70 | 448 | 92.86 | 14.08 | 31.46 |
| clipper_idr | 77 | 219 | 76.62 | 17.64 | 46.89 |
Column IDs have the following meanings: Method ID -> method ID set for dataset (typically peak calling method ID), # regions -> number of peak regions used for motif search, # motif hits -> number of unique motif hits in peak regions (removed double counts), % regions with motifs -> percentage of peak regions with motif hits, % motif nucleotides -> percentage of unique motif nucleotides over effective peak region size (overlapping regions merged), # motif hits per 1000 nt -> number of motif hits over 1000 nt of called peak region size (overlapping regions NOT merged).
Based on the same combined ID "k562_eclip,human_v0.1,PUM1" (data ID, motif database ID, RBP ID), motif hit occurrences for 2 different methods (clipper_idr,dewseq_w100_s5) are compared via Venn diagram. Any given motif hit can either be found only by one method, or be identified by any set (>=2) of methods (intersection areas).
Figure: Venn diagram of motif hit occurrences for 2 different methods (clipper_idr,dewseq_w100_s5) with identical combined ID (k562_eclip,human_v0.1,PUM1) + corresponding percentages of total motif hits for each region (method exclusive and intersection(s)).
Based on the same combined ID "k562_eclip,human_v0.1,PUM2" (data ID, motif database ID, RBP ID), motif hit occurrences for 2 different methods (clipper_idr,dewseq_w100_s5) are compared via Venn diagram. Any given motif hit can either be found only by one method, or be identified by any set (>=2) of methods (intersection areas).
Figure: Venn diagram of motif hit occurrences for 2 different methods (clipper_idr,dewseq_w100_s5) with identical combined ID (k562_eclip,human_v0.1,PUM2) + corresponding percentages of total motif hits for each region (method exclusive and intersection(s)).