total 100 drwxr-xr-x 20 www-data www-data 4096 May 29 15:41 . drwxrwxrwt 11 root root 12288 May 29 15:39 .. drwxr-xr-x 2 www-data www-data 4096 May 28 10:12 CCIG drwxr-xr-x 2 www-data www-data 4096 May 28 12:35 EJNB drwxr-xr-x 2 www-data www-data 4096 May 28 12:37 FFMO drwxr-xr-x 2 www-data www-data 4096 May 28 12:34 FPIF drwxr-xr-x 2 www-data www-data 4096 May 28 12:39 GDGC drwxr-xr-x 2 www-data www-data 4096 May 28 12:57 HFMM drwxr-xr-x 2 www-data www-data 4096 May 28 12:40 IEKG drwxr-xr-x 2 www-data www-data 4096 May 28 11:39 JPHO drwxr-xr-x 2 www-data www-data 4096 May 28 12:44 KGMD drwxr-xr-x 2 www-data www-data 4096 May 29 12:40 KPOA drwxr-xr-x 2 www-data www-data 4096 May 28 12:44 MJAF drwxr-xr-x 2 www-data www-data 4096 May 28 12:42 NIAC drwxr-xr-x 2 www-data www-data 4096 May 29 01:49 NPIG drwxr-xr-x 2 www-data www-data 4096 May 28 12:56 OJPM drwxr-xr-x 2 www-data www-data 4096 May 28 12:39 OMBA drwxr-xr-x 2 www-data www-data 4096 May 28 12:38 OOLH drwxr-xr-x 2 www-data www-data 4096 May 28 12:36 PEPA drwxr-xr-x 2 www-data www-data 4096 May 29 12:52 PIFH -rw-r--r-- 1 www-data www-data 51 May 28 17:08 cache_T2barley.txt -rw-r--r-- 1 www-data www-data 49 May 28 17:09 cache_T3oat.txt -rw-r--r-- 1 www-data www-data 53 May 28 17:06 cache_T3wheat.txt -rw-r--r-- 1 www-data www-data 0 May 29 15:41 test.txtpath = /tmp
Genomic Association and Prediction
| Genome Wide Association (consensus genotype) 1. Select a set of lines, trait, and trials (one trait). 2. Select the genetic map which has the best coverage for this set. 3. Return to this page and select model options then GWAS Analysis | Genome Wide Association (single genotype experiment) 1. Select a set of lines by genotype experiment. 2. Select a trait and phenotype trial. 3. Select the genetic map which has the best coverage for this set. 4. Return to this page and select model options then GWAS Analysis |
| Genomic Prediction 1. Select a set of lines, trait, and trials (one trait). 2. Return to this page and select G-BLUP Analysis for cross-validation of the training set. Then save Training Set. 3. To select a validation set, select a new set of lines using a different trial, then return to this page for analysis. 4. To select a prediction set, select a new set of lines without phenotype measurements, then return to this page for analysis. | |
Additional notes on GWAS and G-BLUP methods