PeakTrace 6 (Auto PeakTrace 6, Auto PeakTrace 6 RP and the Linux PeakTrace 6) has a number of very powerful options that may not have been explored by many users of older versions of PeakTrace. We understand that most of our customers are busy running a sequencing facility and so don’t always have the time to look into each new PeakTrace feature on release. To help we are creating a new series of posts looking in depth what these new options can do, how they can best be used, and how they can help our customers make the most of PeakTrace.
The first in this series of in depth posts is on the Clean Baseline setting and when you may want, and not want, to use this setting. The options we will be covering include
- Automatic Bubble Spike Removal
- Extra Normalization
- Extra Smoothing Part I
- Extra Smoothing Part II
- Trim 3′ End Only
- Mixed Basecalling and Simple Mixed Basecalling
- Picket Fence Trace Basecalling
- Trace Reports
- Clean Baseline
- PCR Trim Base
- Extra Baseline
- Secondary Noise Peaks
- Set ABI Limits
- Use Edited Basecalls
- Skip Short Traces
- PeakTrace Basecalling with KB Fallback
- Fuse Trace and Fuse Basecall
- No Peak Resolution
- Q Average Trace Trimming
- Input Overwrite
We will also be covering some of the more abused/misunderstood settings within Auto PeakTrace 6 such as
- True Profile
- Clear Range Trim
- Force Processing
- Trim Improved Traces Only
- Stealth Mode
- Noise Raw Data
- Mixed Peak Threshold over 100%
- Unicode Logfile
- Archive Traces
- Q Count Trim
- N Base Trim