total 268 drwxr-xr-x 26 www-data www-data 4096 May 20 08:01 . drwxrwxrwt 10 root root 12288 May 20 10:44 .. drwxr-xr-x 2 www-data www-data 4096 May 19 01:55 AAPF drwxr-xr-x 2 www-data www-data 4096 May 19 01:07 CCJI drwxr-xr-x 2 www-data www-data 4096 May 19 01:04 CGGA drwxr-xr-x 2 www-data www-data 4096 May 19 01:47 DKFI drwxr-xr-x 2 www-data www-data 4096 May 19 22:49 DPJD drwxr-xr-x 2 www-data www-data 4096 May 19 00:18 EFGL drwxr-xr-x 2 www-data www-data 4096 May 19 21:31 EHFL drwxr-xr-x 2 www-data www-data 4096 May 19 00:09 ELEP drwxr-xr-x 2 www-data www-data 4096 May 18 23:04 GCDI drwxr-xr-x 2 www-data www-data 4096 May 20 08:01 GDPP drwxr-xr-x 2 www-data www-data 4096 May 18 23:11 GGJL drwxr-xr-x 2 www-data www-data 4096 May 19 05:24 GNCE drwxr-xr-x 2 www-data www-data 4096 May 18 23:55 IMIA drwxr-xr-x 2 www-data www-data 4096 May 19 11:15 JJHN drwxr-xr-x 2 www-data www-data 4096 May 19 18:12 KIDG drwxr-xr-x 2 www-data www-data 4096 May 18 23:07 KOHC drwxr-xr-x 2 www-data www-data 4096 May 20 00:49 LDMJ drwxr-xr-x 2 www-data www-data 4096 May 18 23:07 NJDK drwxr-xr-x 2 www-data www-data 4096 May 19 18:16 NOFJ drwxr-xr-x 2 www-data www-data 4096 May 20 07:09 PGLP drwxr-xr-x 2 www-data www-data 4096 May 18 23:09 PLBM drwxr-xr-x 2 www-data www-data 4096 May 19 09:07 POFM -rw-r--r-- 1 www-data www-data 51 May 19 17:08 cache_T2barley.txt -rw-r--r-- 1 www-data www-data 49 May 19 17:09 cache_T3oat.txt -rw-r--r-- 1 www-data www-data 53 May 19 17:05 cache_T3wheat.txt drwxr-xr-x 2 www-data www-data 4096 May 19 12:16 download_EVLF -rw-r--r-- 1 www-data www-data 139082 May 19 12:16 download_EVLF.zip drwxr-xr-x 2 www-data www-data 4096 May 19 12:17 download_YJIE -rw-r--r-- 1 www-data www-data 4133 May 19 12:17 download_YJIE.zip -rw-r--r-- 1 www-data www-data 0 May 20 10:47 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