This is how my TaqMan data comes out....
| SDS 2.0 | Results 1.0 | ||||||||
| Filename | 5209Nest+20T.sds | ||||||||
| User | |||||||||
| Date | |||||||||
| Comment | |||||||||
| Plate Type | Raven AD | ||||||||
| PCR Volume | 50 | ||||||||
| Sample Info | |||||||||
| Well | Sample Name | VIC Rn (VIC) | FAM Rn (FAM) | NTCm | T1m | T2m | T1n | T2n | Call |
| 1 | A1 | 0.57895935 | 7.5292735 | FAM | |||||
| 2 | A2 | 0.6035197 | 8.0487585 | FAM | |||||
| 3 | A3 | 1.9686655 | 6.284122 | Both | |||||
| 4 | A4 | 2.2174044 | 4.211659 | VIC | |||||
| 5 | A5 | 1.58386 | 5.935019 | Both | |||||
| 6 | A6 | 0.54020244 | 8.099725 | FAM | |||||
| 7 | A7 | 0.52183014 | 8.736663 | FAM | |||||
| 8 | A8 | 1.89546 | 6.3454905 | Both | |||||
| 9 | A9 | 0.61463625 | 8.191666 | FAM | |||||
| 10 | A10 | 0.5705243 | 8.486189 | FAM |
The first 10 are important for keeping track of how the data came into
being, but
the real meat of the data is in the following lines. Since I
don't routinely use
controls the way the machine uses them (I do everything by eye...),
I remove
the columns marked NTCm, T1m, T2m, T1n, and T2n. Then, I use
the
Find/Replace function of Excel to replace the calls with the actual
genotypes,
and put in the names of the individuals in the column marked Sample
Name.
Alternatively, I have made a macro that will do this automatically.
It runs
off a workbook with data like the SNPs you use, their alleles, possible
other
users, and the samples. This is especially useful if you use
the same plates
of samples repetitively. The results look like this:
| SDS 2.0 | Results 1.0 | |||
| Filename | 5209Nest+20T.sds | |||
| User | Dave | |||
| Date | 13/03/02 | |||
| Comment | None | |||
| Plate type | Raven AD | |||
| PCR Volume | 10 | |||
| Sample Information | ||||
| Well | SampleName | VIC Rn (VIC) | FAM Rn(FAM) | Call |
| 1 | C03_01 | 0.57895935 | 7.5292735 | T/T |
| 2 | C03_02 | 0.6035197 | 8.0487585 | T/T |
| 3 | C03_03 | 1.9686655 | 6.284122 | T/G |
| 4 | C03_04 | 2.2174044 | 4.211659 | G/G |
| 5 | C03_05 | 1.58386 | 5.935019 | T/G |
| 6 | C03_06 | 0.54020244 | 8.099725 | T/T |
| 7 | C03_07 | 0.55011964 | 9.312747 | T/T |
| 8 | C03_08 | 0.52183014 | 8.3736663 | T/T |
| 9 | C03_09 | 1.89546 | 6.3454905 | T/G |
| 10 | C03_10 | 0.64163625 | 8.191666 | T/T |
After this, I save the data, and import it into the spreadsheets where
I store my
data using a macro called TaqManIn.
This page was last updated on: August 23, 2002
by David G. Cox