TABLE 1.
Evaluation data set a
| Data set name | European Nucleotide Archive project number | Number of assembled data sets | Sample type | Host | Collection years | |
|---|---|---|---|---|---|---|
| 1 | One Day in Denmark | PRJEB37711 | 2,006 | Human clinical isolate genomes of many different species | Human | 2018 |
| 2 | EFFORT Isolates | PRJEB41365 | 51 | E. coli Isolates—pig feces | Pig | 2015 |
| 3 | EFFORT Metagenomes | PRJEB22062 | 21 | Metagenome—pig feces | Pig | 2015 |
| 4 | Danish VETII project | PRJEB26961 | 210 | Metagenome—pig feces | Pig | 2014–2016 |
| 5 | Danmap 2 | PRJEB50613 | 42 | Metagenome—pig feces | Pig | 2015–2018 |
a
Overview of the data used as input for Flankophile. Detailed input list of data set with public accession codes can be found in Table S1. The first column contains the data set prefix in parentheses that is used for each observation in the Flankophile figures.