smoke2.0.1 package

Small Molecule Octet/BLI Kinetics Experiment

alignLoad-methods

~~ Methods for Function alignLoad ~~

alignLoad

Align BLI traces with loading step

baseline-methods

~~ Methods for Function baseline ~~

baseline

Align BLI traces with baseline step

Bli-class

Class "Bli"

Bli

Constructor of "Bli" class

bliData

BLI data example

doubleBlank-methods

~~ Methods for Function doubleBlank ~~

doubleBlank

Substract the double-references

estimate-methods

~~ Methods for Function estimate ~~

estimate

Estimate initial kinetic parameters

fitKinetics-methods

~~ Methods for Function fitKinetics ~~

fitKinetics

Fit binding kinetics

initialize-methods

~~ Methods for Function initialize ~~

kinetics-methods

~~ Methods for Function kinetics ~~

kinetics

Output kinetics model

kOff0-methods

~~ Methods for Function kOff0 ~~

kOff0

Getter for "Bli" slot of kOff0

kOff0_--methods

~~ Methods for Function kOff0<- ~~

kOff0_-

Setter for "Bli" slot of kOff0

kOn0-methods

~~ Methods for Function kOn0 ~~

kOn0

Getter for "Bli" slot of kOn0

kOn0_--methods

~~ Methods for Function kOn0<- ~~

kOn0_-

Setter for "Bli" slot of kOn0

ligand-methods

~~ Methods for Function ligand ~~

ligand

Getter for "Bli" slot of ligand concentration

ligand_--methods

~~ Methods for Function ligand<- ~~

ligand_-

Setter for "Bli" slot of ligand concentration

nls-class

Class nls

plotKinetics-methods

~~ Methods for Function plotKinetics ~~

plotKinetics

Plot kinetics model fitting

plotResiduals-methods

~~ Methods for Function plotResiduals ~~

plotResiduals

Plot residuals from kinetics model fitting

plotTraces-methods

~~ Methods for Function plotTraces ~~

plotTraces

Plot BLI traces

show-methods

~~ Methods for Function show ~~

smoke-package

tools:::Rd_package_title("smoke")

status-methods

~~ Methods for Function status ~~

status

Getter for data processing status

tExp-methods

~~ Methods for Function tExp ~~

tExp

Getter for BLI times tExp

tExp_--methods

~~ Methods for Function tExp<- ~~

tExp_-

Setter for BLI times tExp

traces-methods

~~ Methods for Function traces ~~

traces

Getter of BLI traces

traces_--methods

~~ Methods for Function traces<- ~~

traces_-

Setter of BLI traces

Bio-Layer Interferometry (BLI) is a technology to determine the binding kinetics between biomolecules. BLI signals are small and noisy when small molecules are investigated as ligands (analytes). We develop this package to process and analyze the BLI data acquired on Octet Red96 from Fortebio more accurately. Sun Q., Li X., et al (2020) <doi:10.1038/s41467-019-14238-3>. In this new version, we organize the BLI experiment data and analysis methods into a S4 class with self-explaining structure.

  • Maintainer: Qingan Sun
  • License: GPL-2 | GPL-3
  • Last published: 2024-03-10