What is the PeakTrace Basecaller
PeakTrace is a Sanger sequencing basecaller that provides better basecalling and improve the read length of DNA sequencing traces by up to 50%. The PeakTrace Basecaller works with all ABI sequencers including the ABI 377, ABI 310, ABI 3700, ABI 3730, ABI 3730xl, ABI 3100, ABI 3500, and ABI 3130. PeakTrace also supports the MegaBACE DNA sequencers.
Figure.1. Example of the PeakTrace basecalling with ABI KB basecalling. This shows the same trace at the same position but just processed with the different basecallers.
Common questions asked about PeakTrace
How is PeakTrace different to other basecaller like ABI’s KB Basecaller?
Put simply, PeakTrace is a better basecaller than KB in exactly the same way that KB is a better basecaller than phred or the old ABI basecaller. KB was a breakthrough when released 10 years ago and PeakTrace is an improvement over KB. PeakTrace provides longer reads, more high quality bases, and better looking traces than KB or any other DNA basecaller on the market.
How can I use PeakTrace?
There are three ways to use PeakTrace. The easiest is to use the free online version of PeakTrace which is designed for users with only a need to basecall a few traces or want to see what PeakTrace can offer on their own data. This provides exactly the same quality as the paid services, however, you are limited to processing only 6 traces per day.
If you need to basecall more traces then 6 per day you will need to register for Auto PeakTrace RP. After registering you will need to purchase a number of PeakTrace basecalling units from our online store, or establish a standing account with us. You will be provided with the password to download the Auto PeakTrace RP software from the Nucleics Download page.
The third way is to use our standalone PeakTrace Basecaller, the PeakTrace:Box system. This is a complete hardware/software system that you can install in your facility and run PeakTrace locally without the need to upload your traces to our server. The PeakTrace:Box system is ideal for users with large numbers of traces to process, or for customers with privacy concerns or needs. For more information on the PeakTrace:Box system please go to the PeakTrace:Box overview page.
How much does Auto PeakTrace RP cost?
The Auto PeakTrace RP software is free, but to use it you need to register to obtain a copy of the software. Once registered, you need purchase processing units from our online store or establish a standing account with us. Auto PeakTrace RP provides control over the trace processing and basecalling parameters. The current prices to purchase Auto PeakTrace RP basecalling units are:
|100 PeakTrace Basecallings||US$30.00|
|1000 PeakTrace Basecallings||US$225.00|
|2000 PeakTrace Basecallings||US$400.00|
|10 000 PeakTrace Basecallings||US$1100.00|
|25 000 PeakTrace Basecallings||US$2000.00|
How much does the PeakTrace:Box system cost?
The monthly lease prices for the PeakTrace:Box systems are:
|500 traces per month system||US$150.00|
|1000 traces per month system||US$225.00|
|2000 traces per month system||US$400.00|
|5000 traces per month system||US$800.00|
|10 000 traces per month system||US$1100.00|
|25 000 traces per month system||US$2000.00|
The three PeakTrace:Mini system (500, 1000, 2000) have an addition once only hardware set-up fee of US$500. Also for lease length of less than six month we may require a deposit on the hardware which is refund if you choose to stop using PeakTrace. Importantly, we offer additional discounts on the PeakTrace:Box system for long term contracts and/or higher volumes.
Am I charged for traces not improved by PeakTrace?
No. Except in a couple of unusual circumstances if your sequence trace is not improved by the PeakTrace basecaller then you are not charged for it. This means you can use PeakTrace with confidence and not worry about paying for failed reactions – it would be nice if BigDye came with the same guarantee.
Which version of PeakTrace should I use?
Can I try PeakTrace for free?
How do I purchase PeakTrace?
If I purchase PeakTrace will you keep my traces?
The bottom line is we will never examine the data of our customers without their permission.
How does PeakTrace work?
PeakTrace is the result of more than 14 years of R&D at Nucleics into improving DNA sequencing quality. While developing products like the CounterTrace DNA sequencing system, CounterTrace II DNA sequencing system and LongTrace we learnt a great deal about how to best process and basecall the raw data of DNA sequencing traces. The algorithms that we developed is what allows the PeakTrace basecalling software to extract more usable bases from each trace. For more information about what PeakTrace can do and how it can be used please visit the PeakTrace basecaller overview page.
I want to know more about PeakTrace
We have release a whitepaper on PeakTrace examining the quality score validity of both the PeakTrace and KB basecallers. Download the PeakTrace Whitepaper.