This macro allows you to transfer your data from
output TaqMan files into your results file.
This macro also offers the possibility, if you want, to compare the Taqman data for a batch of plates, read by two different operators.
If you choose to read a batch of files, from two different users,
you have to create two different folders, containing TaqMan files read by each user, for the same batch of samples.
Then the macro will ask you for the two folders.
Notice that the macro will process all files contained in folders.
Make sure you have only plate files you want to be processed by the macro.
Its use is very easy :
Open the two plate files (first and second reading) :
You have to select the folder containing the first batch of TaqMan output files (i.e., read by the first operator)
You have to select the folder containing the second batch of TaqMan output files (i.e., read by the second operator)
Make sure that the format requirements are met.
Here is an example of a properly formatted file:
SDS 2.1 AD Results 1 Filename plate EGA 011 SD 28R.sds PlateID EGA011ABCD Assay Type Allelic Discrimination Run DateTime 1.12.2004 15:37 Operator
Sample Information Well Sample Name Marker Name Allele X Rn Allele Y Rn Call Quality Value Call Type Task Passive Ref 1 72524917 D28235.5209-TG 0.6098798 1.6452396 D28235.5209T 100 Manual Unknown 751.8816 2 52599260 D28235.5209-TG 1.3060224 1.7955936 Both 100 Manual Unknown 758.2848 3 51245630 D28235.5209-TG 0.64102083 2.4226325 D28235.5209T 100 Manual Unknown 748.478 4 61090237 D28235.5209-TG 0.6027125 2.362953 D28235.5209T 100 Manual Unknown 738.2897 5 61112874 D28235.5209-TG 0.6457324 2.3387187 D28235.5209T 100 Manual Unknown 776.40015 6 41184101 D28235.5209-TG 0.6802159 2.4564142 D28235.5209T 100 Manual Unknown 814.0498 7 22311900 D28235.5209-TG 0.69056743 2.2290199 D28235.5209T 100 Manual Unknown 975.38293 8 24679869 D28235.5209-TG 0.67194396 2.4190805 D28235.5209T 100 Manual Unknown 954.5143 9 72541050 D28235.5209-TG 0.6805688 2.3868046 D28235.5209T 100 Manual Unknown 978.71576 10 61164158 D28235.5209-TG 0.67691207 2.2822857 D28235.5209T 100 Manual Unknown 993.2296 11 51262140 D28235.5209-TG 0.6931439 2.2600842 D28235.5209T 100 Manual Unknown 1084.5939 12 NTC D28235.5209-TG 0.6056874 0.8465618 NTC Manual NTC 1369.3849 13 72526102 D28235.5209-TG 0.6425953 2.4029582 D28235.5209T 100 Manual Unknown 1290.3566 14 52599460 D28235.5209-TG 0.71323776 2.7292786 D28235.5209T 100 Manual Unknown 1296.0095 15 Qc_51247550 D28235.5209-TG 0.8926737 2.5935225 D28235.5209T 100 Manual Unknown 1463.4194 16 61090531 D28235.5209-TG 1.4384847 2.1995547 Both 100 Manual Unknown 1429.958 17 61113711 D28235.5209-TG 0.6696649 2.557972 D28235.5209T 100 Manual Unknown 1383.3431 18 41183497 D28235.5209-TG 0.69521827 2.5697856 D28235.5209T 100 Manual Unknown 1509.0962
AND SO ON...
Note that the whole marker name should be composed by the marker name (no special format for this) followed by the two alleles.
Only one letter is authorized per allele.
The two last letters will be interpreted by the macro as the alleles.
If you have to genotype insertion or deletion, please use the "I" or "D" letters.
When you define the detectors in SDS,
please make sure that the last character corresponds to one of the alleles.
(the same letters as the ones chosen in the marker name).
Next, open your results file.
An example of properly formatted results file is available here:
|AND SO ON...|
Once you have selected the TaqMan Files and you
push the button "Data Transfer".
If you've chosen the double reading,
check for discrepancies, in the column "Consensus", that may exist between the two readings and correct them.
To save time, you can press the button "Solve discrepancies" .
This will replace all of them by a "-" character, meaning undetermined genotype.
Once you have resolved all discrepancies, push the button "TaqManTo Results".
If the marker name is not in the results file, the macro will add it for you.
If you add some results for a previously processed marker,
the macro will add new results to the corresponding samples, in the proper column.
At the end of the transfer, you will be prompted
to do the Quality Control analysis.
If you choose "Yes", make sure you have added the "Qc_" to the sample names beforehand.
The macro will know that samples whose name starts with "Qc_" are quality control samples,
and it will compare the genotype found for the sample and the genotype found for its control.
Any discrepancies will be recorded in the "Quality Control Report File", a text file created during the analysis.
Finally, you can translate the genotypes,
recorded in the results file in nucleotides "A", "T",
into numbers "1", "2", "3", "4".
The translation will be recorded in a new worksheet "Translation", added during the process in your results file.
Description of the macro.
Download the macro.
Back to the program list.
This page was last updated on: July 01, 2005 by Stéphanie Monnier