Table 2. Fifteen methods with the source of the software used herein.

Method	Citation	Source of code
1	Benjamini and Hochberg [6]	GeneTS
2	Benjamini and Hochberg [14]	GeneTS
3	Mosig et al., [15]	Website
4	Storey & Tibshirani [16]	Qvalue
5	Storey, Taylor, Siegmund [17]	Qvalue
6	Schweder and Spjøtvoll [18]	Coded by us
7	Dalmasso, Broët, and Moreau [19]	Author website
8	Langaas, Lindqvist, Ferkingstad [20]	Limma
9	Scheid and Spang [21]	Twilight
10	Pounds and Morris [22]	Author website
11	Pounds and Cheng [23]	Author website
12	Liao et al., [24]	Author website
13	Broberg [25]	SAGx
14	Broberg [25]	SAGx
15	Allison et al., [26]	From authors

Most software was available as an R library at www.r-project.org, and was otherwise available from an author's website or coded by us.