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azavea / nasa-hyperspectral

An event-driven image processing pipeline for developing our foundational capability to work with HSI data sources.
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Apply phycocyanin index #177

Closed jpolchlo closed 3 years ago

jpolchlo commented 3 years ago

In the paper referenced below, an index to detect phycocyanin, a toxin produced by cyanobacteria, was presented. It would be a good idea to attempt to apply this method to some real data. This index uses three wavelengths to perform the detection which are available in ESA's MERIS (also represented in Sentinel-3). This method can be applied to most hyperspectral data in the VNIR range as well.

Reference: Mishra, S., & Mishra, D. R. (2014). A novel remote sensing algorithm to quantify phycocyanin in cyanobacterial algal blooms. Environmental Research Letters, 9(11), 114003.

jpolchlo commented 3 years ago

A note of possible interest: in the Sentinel-3 docs, the 620nm band is described as capturing "sediment loading". 620nm is a key response window for phycocyanin. This problem may suffer from some amount of confounding with sediment signals by its nature, and perhaps other cyanobacterial markers will be preferred.

jamesmcclain commented 3 years ago

:eye: :eye:

jamesmcclain commented 3 years ago

This is being actively discussed in https://github.com/raster-foundry/groundwork/issues/1607