The tm_calc.pl script which this site runs can use text files with data for temperature and fluorescence intensity if:
For example, this snippet uses commas as delimiters:
... Cycle,Temp,A01,A02,A03,... 1,20,0.032,0.231,0.003,... 2,21,0.043,0.203,0.005,... 3,22,0.024,0.215,0.013,... ... 71,90,1.34,0.56,0.043,... ...
Binary data files (extension .tad or .tad2) can be converted to .csv files either by exporting them via Opticon Monitor 3 software, or by downloading and running the perl script tad2csv.pl
Files from six different RT-PCR machines can be converted to a common format by pasting their exported .csv files into the appropriate Excel transform spreadsheet developed by the Structural Genomics Consortium (SGC) . Data in this common format can then be copied and pasted into SGC's analysis spreadsheet to fit a single transition using Graphpad, and using one data point for each degree Celsius.
Or, data in the common SGC format can be exported from the transform spreadsheet to a .csv file and used by this server or by the tm_calc.pl script to fit multiple transitions using all available data. Sample names and Well positions are not preserved in this process, but sample numbers remain consistent.
Transform spreadsheets are available for data in the format produced by the following machines: ABI 7300, ABI 7900HT, ABI StepOnePlus, Agilent Mx3005p, BioRad IQ5 , and BioRad MiniOpticon
SGC invites requests to develop transforms for other formats. Sample files and an instruction manual are also available from SGC.
The new file, e.g. sample_name.trf.csv, can now be used by tm_calc.pl or by this server.