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Replication Data for: realdata

Harvard Dataverse (Africa Rice Center, Bioversity International, CCAFS, CIAT, IFPRI, IRRI and WorldFish)

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Title Replication Data for: realdata
 
Identifier https://doi.org/10.7910/DVN/AFZZVP
 
Creator Xu, Ningning
 
Publisher Harvard Dataverse
 
Description (1) dataandpathway_eisner.R, dataandpathway_bordbar.R, dataandpathway_taware.R and dataandpathway_almutawa.R: functions and codes to clean the realdata sets and obtain the annotation databases, which are save as .RData files in sudfolders Eisner, Bordbar, Taware and Al-Mutawa respectively.

(2) FWER_excess.R: functions to show the inflation of FWER when integrating multiple annotation databases and to generate Table 1.

(3) data_info.R: code to obtain Table 2 and Table 3.

(4) rejections_perdataset.R and triangulartable.R: functions to generate Table 4. The runing time of rejections_perdataset.R is 7 hours around, we thus save the corresponding results as res_eisner.RData, res_bordbar.RData, res_taware.RData and res_almutawa.RData in subfolders Eisner, Bordbar, Taware and Al-Mutawa respectively.

(5) pathwaysizerank.R: code for generating Figure 4 based on res_eisner.RData from (h).

(6) iterationandtime_plot.R: code for generating Figure 5 based on “Al-Mutawa” data. The code is really time-consuming, nearly 5 days, we thus save the corresponding results and plot them in the main manuscript by pgfplot.
 
Subject Mathematical Sciences
 
Contributor Xu, Ningning