[Bioperl-l] Raw data chromatograms

fabrizio at cribi.unipd.it fabrizio at cribi.unipd.it
Wed May 26 03:39:51 EDT 2004

I'm a new user of bioperl! 
I'm trying to make a script in order to identify contaminations between two 
sequences analyzed by capillary neighbors in the 3730XL DNA Sequencer. 
"Manually" this fact can be seen by looking at the chromatograms of 
the raw data (for example in program "sequence analysis" of Applied 
The simplest thing is probably to study the correlation coefficient in a 
certain time window; however, in order to do that I must get the trace of 
the different bases from the ABI files. 
The ABI.pm module seems to me only to detect the traces that make up the 
final chromatogram, in which it is nearly impossible to see possibile 
contaminations (as the peaks have already been analyzed and modified). 
Do you know if there is a way to also the get the raw data? Or do you have 
other ideas or possible solutions for this problem? 
Forgive my English, I'm studying this, too :) 
Thanks for any assistance you can give me. 
C-mon, Feliz, you can do it. Say Woof!       
Incorrect! Stupid cat...      

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