## chipPCR: Toolkit of helper functions to pre-process amplification data

The chipPCR package is a toolkit of functions to preprocess
amplification curve data. Amplification data can be obtained from
conventional PCR reactions or isothermal amplification reactions. The
package contains functions to normalize and baseline amplification curves,
a routine to detect the start of an amplification reaction, several
smoothers for amplification data, a function to distinguish positive and
negative amplification reactions and a function to determine the
amplification efficiency. The smoothers are based on LOWESS, moving
average, cubic splines, Savitzky-Golay and others. In addition the first
approximate approximate derivative maximum (FDM) and second approximate
derivative maximum (SDM) can be calculated by a 5-point-stencil as
quantification points from real-time amplification curves. chipPCR contains
data sets of experimental nucleic acid amplification systems including the
VideoScan HCU and a capillary convective PCR (ccPCR) system. The
amplification data were generated by helicase dependent amplification (HDA)
or polymerase chain reaction (PCR) under various temperature conditions. As
detection system intercalating dyes (EvaGreen, SYBR Green) and hydrolysis
probes (TaqMan) were used. The latest source code is available via:
https://github.com/michbur/chipPCR

Version: |
0.0.8-1 |

Depends: |
R (≥ 3.0.0), methods |

Imports: |
lmtest, MASS, outliers, ptw, quantreg, Rfit, robustbase, shiny, signal |

Suggests: |
drc, knitr, markdown, MBmca (≥ 0.0.3-4), qpcR, xtable |

Published: |
2014-08-26 |

Author: |
Stefan Roediger, Michal Burdukiewicz |

Maintainer: |
Stefan Roediger <stefan.roediger at hs-lausitz.de> |

License: |
GPL-3 |

URL: |
https://github.com/michbur/chipPCR |

NeedsCompilation: |
no |

Materials: |
README ChangeLog |

CRAN checks: |
chipPCR results |

#### Downloads:

#### Reverse dependencies: