clay minearals

Numerical Integration/Differentiation in R: FTIR Spectra

Submitted by dylan on Tue, 2010-02-23 21:42.

 
Stumbled upon an excellent example of how to perform numerical integration in R. Below is an example of piece-wise linear and spline fits to FTIR data, and the resulting computed area under the curve. With a high density of points, it seems like the linear approximation is most efficient and sufficiently accurate. With very large sequences, it may be necessary to adjust the value passed to the subdivisions argument of integrate(). Strangely, larger values seem to solve problems encountered with large datasets...

FTIR Spectra IntegrationFTIR Spectra Integration

Example XRD plot 2

Submitted by dylan on Mon, 2007-12-17 05:51.
Example XRD plot 2

illustrating common d-spacings

Example XRD plot with lattice graphics

Submitted by dylan on Mon, 2007-12-17 00:10.
Example XRD plot with lattice graphics

7 horizons and 5 treatments

Plotting XRD (X-Ray Diffraction) Data

Submitted by dylan on Mon, 2007-12-17 00:04.

 
Premise:

Multi-horizon XRD sample plot 2

Submitted by dylan on Thu, 2005-12-08 08:20.
Multi-horizon XRD sample plot 2

MG and MG+GLY treatments vs. K treatment for an entire soil profile.

Multi-horizon XRD sample plot 1

Submitted by dylan on Thu, 2005-12-08 08:18.
Multi-horizon XRD sample plot 1

three potassium treatments for all horizons of a soil profile

Two-page display of XRD data for an entire soil profile

Submitted by dylan on Thu, 2005-12-08 08:18.

Some ideas on annotating common d-spacings

Submitted by dylan on Mon, 2005-11-28 05:24.

## note that we need to define this function before we can use it
## put all of the plotting commands into a wrapper function:
plot_xrd <- function(d)
        {

Quick trip to the Ione formation

Submitted by dylan on Sun, 2005-06-26 19:20.
Roadcut
Fig 2: Road Cut
Ped features from the Ione soil.
Fig 1: Ped Features
Exposed surface
Fig 3: Exposed Surface
Landscape near the Ione Formation.
Fig 4: Landscape
Landscape on the Ione formation.
Fig 5: Another Landscape

There are few opportunities to see an Oxisol outside of the tropics. The Ione soil is one example of an Oxisol formed in a tropical paleoclimate, protected by a layer of ironstone, and later exposed during recent times. This soil is thought to have originally formed from highly weathered alluvium washed down from the original Sierra Nevada (Eocene age) and deposited in a low energy environment. Subsequent uplift coupled with repeated wetting and drying cycles transformed plinthite near the surface into ironstone. This extremely hard surface of iron stone protected the underlying material from erosion, and was eventually buried by cobbly alluvium of similar age to that of the China Hat formation. Later uplift of the Sierra Nevada and the resulting erosion of overlying material re-exposed the Ione formation materials. Recent colluvial deposits have created a considerable layer of overburden, masking the properties of the original Ione material near the surface. The subsurface of this polygenic soil contained oxic horizons: a horizon with less than 10% weatherable minerals in the sand fraction and a high content of low activity clays such as kaolinite (Buol et al., 2003). In addition, redoximorphic features such as iron concretions and nodules were found throughout the oxic horizons. Concentrations of hematite, goethite, and plinthite were also visible in the oxic horizons (See Figure 1). For the classification of Oxisols, an otherwise xeric soil moisture regime is recognized as ustic in the Keys To Soil Taxonomy 9th edition. This characteristic coupled with a base saturation greater than 35% is recognized at the great group level classification of this soil: an Eutroustox.