Sample names for the 2017 samples, which will be used for GBS and 16S/ITS, were provided in the Excel spreadsheet, by collaborators at the University of Tennessee. Populations were encoded with color! In March 2021, Alex Buerkle wrote a R script to read from the Excel sheet and encode population numbers in the sample ids.
Shannon Harris Gregg Randolph : could you please run the fix_analysis_xls.R script yourself and examine the fixed.alfalfa object for possible errors in encoding the populations, which I had to do by hand? Please document any changes that need to be made and please let Alex Buerkle know.
Templates:
Plate Name | Samples | GBS Prep Needed | GBS Prep Completed | 16S/ITS Needed | 16S/ITS Completed |
ALF_PLT1_2017_GBS | 96 | Y | Y | N | |
ALF_PLT2_2017_GBS | 96 | Y | Y | N | |
ALF_PLT3_2017_GBS | 96 | Y | Y | N | |
ALF_PLT4_2017_GBS | 96 | Y | Y | N | |
ALF_PLT5_2017_GBS | 96 | Y | Y | N |
|
ALF_PLT6_2017_GBS | 96 | Y | Y | N |
|
ALF_PLT7_2017_GBS | 96 | Y | Y | N |
|
ALF_PLT8_2017_GBS | 96 | Y | Y | N |
|
ALF_PLT9_2017_GBS | 96 | Y | Y | N |
|
ALF_PLT10_2017_GBS | 96 | Y | Y | N | |
ALF_PLT11_2017_GBS | 29 | Y | Y | N | |
ALF_PLT1_2020_GBS | 96 | Y | Y | N |
|
ALF_PLT2_2020_GBS | 96 | Y | Y | N |
|
ALF_PLT3_2020_GBS | 96 | Y | Y | N |
|
ALF_PLT4_2020_GBS | 96 | Y | Y | N |
|
ALF_PLT5_2020_GBS | 96 | Y | Y | N |
|
ALF_PLT6_2020_GBS | 96 | Y | Y | N | |
ALF_PLT1_2020_END | 96 | Y | Y | Y |
|
ALF_PLT2_2020_END | 96 | Y | Y | Y |
|
ALF_PLT3_2020_END | 96 | Y | Y | Y |
|
ALF_PLT4_2020_END | 96 | Y | Y | Y |
|
ALF_PLT5_2020_END | 96 | Y | Y | Y |
|
ALF_PLT6_2020_END | 96 | Y | Y | Y |
|
ALF_PLT7_2020_END | 96 | Y | Y | Y |
|
ALF_PLT8_2020_END | 96 | Y | Y | Y |
|
ALF_PLT1_2020_EPI | 96 | N | Y | ||
ALF_PLT2_2020_EPI | 96 | N | Y | ||
ALF_PLT3_2020_EPI | 96 | N | Y | ||
ALF_PLT4_2020_EPI | 96 | N | Y | ||
ALF_PLT5_2020_EPI | 96 | N | Y | ||
ALF_PLT6_2020_EPI | 96 | N | Y | ||
ALF_PLT7_2020_EPI | 96 | N | Y | ||
ALF_PLT8_2020_EPI | 96 | N | Y | ||
3101 |