Tetmer v2.3.0

Bug fix

The bias parameter is higher for datasets with higher coverage. Thus, the effect of bias should differ between the peaks of a spectrum. This is now accounted for in Tetmer v2.3.0, which produces better fits.

Full Changelog: v2.2.1...v2.3.0

Tetmer v2.2.1

New feature

The function read.spectrum now has a logical parameter no0 which is FALSE by default. If set to TRUE, prepare.spectrum is not run on the data and thus no zero lines are inserted. This makes objects containing un-cropped spectra (going up to high multiplicities) much smaller.

Tetmer v2.2.0

New features

• Save fitted parameters to TXT
• Choose spectrum file via system dialog or drag'n'drop
• Segmental allotetraploid model (switch on using function allowSegTet())
• User-adjustable slider ranges for auto fit mode (functions sliderRanges() and setSliderRanges())

Tetmer v2.1.0

Fixes

• allotriploid model

New features

• can supply k-mer length when loading spectrum
• Contaminant curve

Tetmer is now an R package

New features

• Tetmer is now an R package
• New functions:
  • read.spectrum()
  • plot.spectrum()
• Models added for triploids (allo and auto)

Setup

1. Download the file Tetmer_2.0.0.tar.gz to your computer (from the Assets section below)
2. Inside R, run install.packages("path/to/Tetmer_2.0.0.tar.gz", repo=NULL)

Tetmer

The first official release of Tetmer.

Features:

• fitting parameters to tetraploid (allo and auto) and diploid k-mer spectra
• visualisation of the expected spectrum given arbitrary sets of parameters