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Table 1 Detailed output generated by postQTL for a population of 100 F2 individuals (population #2)

From: postQTL: a QTL mapping R workflow to improve the accuracy of true positive loci identification

Chromosome no Simulated QTL postQTL Note
Mapping Model search Regression coefficients Marker prediction
Identified QTL Markers LASSO MCP
1 Q1 (1.0)a Q1 SL4.0ch01.2197362   − 0.12 0.00   
    SL4.0ch01.2487844   0.34 0.00   
    SL4.0ch01.2691495 SL4.0ch01.2691495 0.81 1.01 SL4.0ch01.2691495  
        SL4.0ch01.40326692  
2 None Q2 SL4.0ch02.429499   − 0.10 − 0.10   False positive
    SL4.0ch02.13770617   0.14 0   
    SL4.0ch02.14095766 SL4.0ch02.14095766 0.03 0.20   
        SL4.0ch02.8249371  
        SL4.0ch02.8542361  
3 None Q3 SL4.0ch03.3639459 none 0.00 0.00   False positive
        SL4.0ch03.11275781  
        SL4.0ch03.14433259  
4 None Q4 SL4.0ch04.18671677 SL4.0ch04.18671677 − 0.37 0.00   False positive
    SL4.0ch04.17073658   0.68 0.34   
        SL4.0ch04.41538629  
        SL4.0ch04.43011116  
5 Q5 (0.5) Q5 SL4.0ch05.796224 SL4.0ch05.796224 0.16 0.20   
    SL4.0ch05.2349396 SL4.0ch05.2349396 − 4.00 − 0.42   
        SL4.0ch05.3014277  
        SL4.0ch05.4441924  
6 None None None n/a    SL4.0ch06.39779625  
        SL4.0ch06.40466450  
7 Q7 (0.2) Q7 SL4.0ch07.2934431 SL4.0ch07.2934431 − 0.20 − 0.20   
    SL4.0ch07.1720405   − 0.10 0.00   
        SL4.0ch07.4104019  
        SL4.0ch07.7244193  
8 None None None n/a    SL4.0ch08.15907452  
        SL4.0ch08.16388051  
9 None None None n/a    SL4.0ch09.10567972  
        SL4.0ch09.12706265  
10 None None None n/a    SL4.0ch10.22453627  
        SL4.0ch10.53911516  
11 None None None n/a    SL4.0ch11.36161726  
        SL4.0ch11.45414687  
12 Q12 (0.2) Q12 SL4.0ch12.7161 SL4.0ch12.7161 0.37 0.33 SL4.0ch12.7161  
    SL4.0ch12.3165252 SL4.0ch12.3165252 − 0.29 − 0.28   
        SL4.0ch12.49390591  
  1. n/a: Not available
  2. aGenetic effect