# aed_compare

ingenannot aed_compare generate graphs for AED comparison between different annotation sources.

## usage

```
$ ingenannot -v 2 aed_compare file.fof
```

positional arguments:

FoF |
File of files, <GFF/GTF>TAB<source> |

optional arguments:

-h, –help |
show this help message and exit |

-s, –statistics |
Perform statistics on aed scores between sources , default=False |

## inputs

File of Files (FoF) with all files to compare. One per line such: <GFF/GTF>TAB<source>.

## outputs

The output consist of 3 graphics, showing cumulative distributions of aed scores for transcripts, proteins or best of both for all sources of dataset available in the FoF. These graphics allow comparison of aed score between datasets. You can compute some metrics as … with –statistics

Output example of plot showing cumulative transcript aed scores:

Output of statistics:

# |
mean (tr) |
median (tr) |
stdev (tr) |
mean (pr) |
median (pr) |
stdev (pr) |
median_geom_x |
median_geom_y |
mean_distance |
mean_distance_to_0 |
median_distance |
median_distance_to_0 |
---|---|---|---|---|---|---|---|---|---|---|---|---|

run1 |
0.244 |
0.152 |
0.258 |
0.478 |
0.176 |
0.480 |
0.176 |
0.238 |
0.515 |
0.296 |
0.287 |
0.296 |

run2 |
0.239 |
0.138 |
0.255 |
0.444 |
0.089 |
0.476 |
0.154 |
0.160 |
0.495 |
0.222 |
0.216 |
0.222 |

run3 |
0.171 |
0.030 |
0.273 |
0.551 |
1.000 |
0.482 |
0.144 |
0.656 |
0.537 |
0.671 |
0.567 |
0.671 |

Basic metrics as mean, median and stdev are provided, as well as geometric median and distance of all transcripts to this median or distance to the ideal point (0,0).