Sicegar: R package for sigmoidal and double-sigmoidal curve fitting

Sigmoidal and double-sigmoidal dynamics are commonly observed in many areas of biology. Here we present sicegar, an R package for the automated fitting and classification of sigmoidal and double-sigmoidal data. The package categorizes data into one of three categories, “no signal,” “sigmoidal,” or “...
Ausführliche Beschreibung

Gespeichert in:

Autor*in:	M. Umut Caglar [verfasserIn] Ashley I. Teufel [verfasserIn] Claus O. Wilke [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2018

Schlagwörter:	R package Curve fitting Sigmoidal growth Double-sigmoidal growth

Übergeordnetes Werk:	In: PeerJ - PeerJ Inc., 2013, 6, p e4251(2018)
Übergeordnetes Werk:	volume:6, p e4251 ; year:2018

Links:	Link aufrufen Link aufrufen Link aufrufen Link aufrufen Journal toc

DOI / URN:	10.7717/peerj.4251

Katalog-ID:	DOAJ007174187

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authorswithroles_txt_mv	M. Umut Caglar @@aut@@ Ashley I. Teufel @@aut@@ Claus O. Wilke @@aut@@
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callnumber-first	Q - Science
author	M. Umut Caglar
spellingShingle	M. Umut Caglar misc QH301-705.5 misc R package misc Curve fitting misc Sigmoidal growth misc Double-sigmoidal growth misc Medicine misc R misc Biology (General) Sicegar: R package for sigmoidal and double-sigmoidal curve fitting
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topic_title	QH301-705.5 Sicegar: R package for sigmoidal and double-sigmoidal curve fitting R package Curve fitting Sigmoidal growth Double-sigmoidal growth
topic	misc QH301-705.5 misc R package misc Curve fitting misc Sigmoidal growth misc Double-sigmoidal growth misc Medicine misc R misc Biology (General)
topic_unstemmed	misc QH301-705.5 misc R package misc Curve fitting misc Sigmoidal growth misc Double-sigmoidal growth misc Medicine misc R misc Biology (General)
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title	Sicegar: R package for sigmoidal and double-sigmoidal curve fitting
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title_full	Sicegar: R package for sigmoidal and double-sigmoidal curve fitting
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title_sort	sicegar: r package for sigmoidal and double-sigmoidal curve fitting
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title_auth	Sicegar: R package for sigmoidal and double-sigmoidal curve fitting
abstract	Sigmoidal and double-sigmoidal dynamics are commonly observed in many areas of biology. Here we present sicegar, an R package for the automated fitting and classification of sigmoidal and double-sigmoidal data. The package categorizes data into one of three categories, “no signal,” “sigmoidal,” or “double-sigmoidal,” by rigorously fitting a series of mathematical models to the data. The data is labeled as “ambiguous” if neither the sigmoidal nor double-sigmoidal model fit the data well. In addition to performing the classification, the package also reports a wealth of metrics as well as biologically meaningful parameters describing the sigmoidal or double-sigmoidal curves. In extensive simulations, we find that the package performs well, can recover the original dynamics even under fairly high noise levels, and will typically classify curves as “ambiguous” rather than misclassifying them. The package is available on CRAN and comes with extensive documentation and usage examples.
abstractGer	Sigmoidal and double-sigmoidal dynamics are commonly observed in many areas of biology. Here we present sicegar, an R package for the automated fitting and classification of sigmoidal and double-sigmoidal data. The package categorizes data into one of three categories, “no signal,” “sigmoidal,” or “double-sigmoidal,” by rigorously fitting a series of mathematical models to the data. The data is labeled as “ambiguous” if neither the sigmoidal nor double-sigmoidal model fit the data well. In addition to performing the classification, the package also reports a wealth of metrics as well as biologically meaningful parameters describing the sigmoidal or double-sigmoidal curves. In extensive simulations, we find that the package performs well, can recover the original dynamics even under fairly high noise levels, and will typically classify curves as “ambiguous” rather than misclassifying them. The package is available on CRAN and comes with extensive documentation and usage examples.
abstract_unstemmed	Sigmoidal and double-sigmoidal dynamics are commonly observed in many areas of biology. Here we present sicegar, an R package for the automated fitting and classification of sigmoidal and double-sigmoidal data. The package categorizes data into one of three categories, “no signal,” “sigmoidal,” or “double-sigmoidal,” by rigorously fitting a series of mathematical models to the data. The data is labeled as “ambiguous” if neither the sigmoidal nor double-sigmoidal model fit the data well. In addition to performing the classification, the package also reports a wealth of metrics as well as biologically meaningful parameters describing the sigmoidal or double-sigmoidal curves. In extensive simulations, we find that the package performs well, can recover the original dynamics even under fairly high noise levels, and will typically classify curves as “ambiguous” rather than misclassifying them. The package is available on CRAN and comes with extensive documentation and usage examples.
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title_short	Sicegar: R package for sigmoidal and double-sigmoidal curve fitting
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Sicegar: R package for sigmoidal and double-sigmoidal curve fitting

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