Pore Dimensions Calculator
Use this app below to calculate the diameter and length of your nanopore from the open pore conductance and the blockage depth of your preferred molecular ruler (e.g. dsDNA with 2.2 nm diameter). If you do not have molecular data, you can assume a nominal pore length by checking the Pore Length Known box below.
Here, the calculator models both the pore and the molecule as cylinders (see a brief disclaimer about the limitations of the model below). Be careful of your units and be patient with our web server (it can be slow).
Note that we are still trying to figure out how to properly propagate the errors in the calculated pore length and diameter. For the time being please ignore the uncertainties.
Here, the calculator models both the pore and the molecule as cylinders (see a brief disclaimer about the limitations of the model below). Be careful of your units and be patient with our web server (it can be slow).
Note that we are still trying to figure out how to properly propagate the errors in the calculated pore length and diameter. For the time being please ignore the uncertainties.
This calculator is based on the model of -
Charron et al. “Improved Conductance Blockage Modeling of Cylindrical Nanopores – from 2D to Thick Membranes”.
Please cite this article if you use this tool.
Charron et al. “Improved Conductance Blockage Modeling of Cylindrical Nanopores – from 2D to Thick Membranes”.
Please cite this article if you use this tool.
Disclaimer:
- Model Limitations. The equations used for the pore dimensions calculation arise from a model that estimates pore conductance and has known limitations. For instance, the model is not good at predicting the pore length of ultra-thin pores, yet it can predict pore diameter accurately.
- Pore Geometry. If the pores you are using are not cylindrical, the extracted pore length might differ from the nominal membrane thickness. The figures on the right show the extracted dimensions from the simulated conductance of hyperbolic shaped pores, the extracted length, i.e. the effective cylindrical equivalent pore length in this case is significantly thinner than the real membrane thickness.
- Number of solutions. It is possible that the model outputs two pairs of pore diameter and length solutions, especially when dealing with ultra-thin membranes, due to the model not being bijective in this domain. Both dimensions could be correct. We thus suggest not using this model under such conditions.
