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
Template info from Erin Bentley as Google Sheet, or attached here on as a text file.
There will be additional samples beyond what is listed below (as of ). We expect on the order of 3647 samples for ITS and 16S preps and sequencing.
GBS only preps
GBS Plates | |||
Plate Name | Samples | GBS Prep Complete | |
ALF_PLT1_2017_GBS | 96 | ||
Y |
ALF_PLT2_2017_GBS | 96 | |
Y |
ALF_PLT3_2017_GBS | 96 | |
Y |
ALF_PLT4_2017_GBS | 96 | |
Y |
N
ALF_PLT5_2017_GBS | 96 | |
Y |
N
ALF_PLT6_2017_GBS | 96 | Y | |
Y
N
ALF_PLT7_2017_GBS | 96 | Y | |
Y
N
ALF_PLT8_2017_GBS | 96 | |
Y |
N
ALF_PLT9_2017_GBS | 96 | |
Y |
N
ALF_PLT10_2017_GBS | 96 | |
Y |
ALF_PLT11_2017_GBS | 29 | Y | |
Y
ALF_PLT1_2020_GBS (GBS Only) | 96 | Y | |
ALF_ | |||
PLT2_2020_GBS (GBS Only) | 96 | Y | |
Y
N
ALF_PLT3_2020_GBS (GBS Only) | 96 | Y | |
ALF_ | |||
PLT4_2020_GBS (GBS Only) | 96 | Y | |
Y
N
ALF_PLT5_2020_GBS (GBS Only) | 96 | Y | |
ALF_ | |||
PLT6_2020_GBS (GBS Only) | 96 | Y | |
Y
N
ALF_PLT1_2020_END | 96 | Y | |
ALF_ | |||
PLT2_2020_ |
END | 96 | Y | |
Y
N
ALF_PLT3_2020_END | 96 | Y | |
ALF_ | |||
PLT4_2020_ |
END | 96 | Y | |
Y
N
ALF_PLT5_2020_END | 96 | Y | |
ALF_PLT6_2020_ | |||
END | 96 | Y | |
ALF_PLT7_2020_END | 96 | Y | |
ALF_ | |
PLT8_2020_END | 96 | Y | |
Y
| 2333 |
| |
16S/ITS preps
16S/ITS Plates | ||
Plate Name | Samples | 16S/ITS Completed |
ALF_PLT1_2017_GBS | 96 |
|
ALF_PLT2 | ||
_2017_GBS | 96 |
|
ALF_PLT3_2017_GBS | 96 |
|
ALF_PLT4_2017_GBS | 96 |
|
ALF_PLT5_2017_GBS | 96 |
|
ALF_PLT6_2017_GBS | 96 |
Y
Y
| ||
ALF_PLT7_2017_GBS | 96 |
|
ALF_ |
PLT8_ |
2017_ |
GBS | 96 |
Y
Y
| ||
ALF_PLT9_2017_GBS | 96 |
|
ALF_ |
PLT10_ |
2017_ |
GBS | 96 |
Y
Y
| ||
ALF_PLT11_2017_GBS | 29 |
|
ALF_ |
PLT1_2020_END | 96 |
Y
Y
| ||
ALF_PLT2_2020_END | 96 |
|
ALF_ |
PLT3_2020_END | 96 |
Y
Y
| ||
ALF_PLT4_2020_END | 96 |
|
ALF_ |
PLT5_2020_END | 96 |
Y
Y
| ||
ALF_PLT6_2020_END | 96 |
|
ALF_ |
PLT7_2020_END | 96 |
Y
Y
| ||
ALF_PLT8_2020_END | 96 |
|
ALF_PLT1_2020_EPI | 96 |
|
Y
ALF_PLT2_2020_EPI | 96 |
N
| |
ALF_PLT3_2020_EPI | 96 |
N
| |
ALF_PLT4_2020_EPI | 96 |
N
| |
ALF_PLT5_2020_EPI | 96 |
N
| |
ALF_PLT6_2020_EPI | 96 |
N
| |
ALF_PLT7_2020_EPI | 96 |
N
| |
ALF_PLT8_2020_EPI | 96 |
|
|
2525 |
|