Skip to main content

Table 1 Parameter settings for generating the simulations using Artificial Life Framework (ALF)

From: GenFamClust: an accurate, synteny-aware and reliable homology inference algorithm

Sim. #

# of families

Dup. rate

# of genes

Translocation rate

Subs. rate

1

329

0.0025

4272

0.002

350

2

289

0.0025

3837

0.001

350

3

382

0.0025

4065

0.0002

350

4

241

0.0045

4433

0.002

250

5

258

0.003

3941

0.001

250

6

233

0.003

3899

0.0002

250

  1. Each dataset has a different substitution rate and/or translocation rate to show changes in gene sequence and order conservation. Datasets 1, 2 and 3 have lower sequence conservation while Datasets 4, 5 and 6 have higher sequence conservation. Similarly, Datasets 1 and 4 have low, 2 and 5 have medium and 3 and 6 have high gene order conservation