Generating elemental maps from core-loss energy filtered micrographs

As the electron beam interacts with the sample, electrons will scatter elastically and inelastically. A magnetic prism beneath the TEM can separate scattered electrons into their respective energy losses, after which a slit is used to select only electrons of a specified energy loss to create the image. Selecting only elastically scattered electrons, for example, will generate a zero-loss image, which has improved contrast compared with an unfiltered image due to the larger inelastic scattering cross-section (when compared with elastic cross-sections) of organic materials.^[Reference Egerton^15, Reference Gomez, Ruegg, Minor, Kisielowski, Downing, Glaeser and Balsara^16] As shown for P3HT/PCBM mixtures, the zero-loss [Fig. 1(b)] and unfiltered images [Fig. 1(a)] can be used to calculate a thickness map [Fig. 1(c)].

Figure 1.

TEM images of P3HT/PCBM films. The unfiltered image (a) consists of both elastically and inelastically scattered electrons. The zero-loss image (b) is composed of only elastically scattered electrons. From the unfiltered and zero-loss image, a thickness map (c) can be generated. While zero-loss images of polymeric materials do not reveal much structure, elemental maps such as a sulfur map (g) can be generated through the three-window method, which uses two pre-edge images (d, e) to estimate a background that is subtracted from a post-edge image (f).

Often there is little mass contrast in zero-loss images for polymeric materials because differences in density are small. As a consequence, many TEM micrographs of polymers rely on chemical or physical selective staining with heavy elements to generate imaging contrast.^[Reference Sawyer, Grubb and Meyers^17] Instead, we can use core-loss electrons to obtain elemental maps. This is most commonly accomplished using the three-window method, in which two pre-edge images [Figs 1(d) and 1(e)] and one post-edge image [Fig. 1(f)] is acquired. The energy window selected for the three energy-filtered micrographs are optimized from the electron energy-loss spectrum near the edge of interest; for P3HT/PCBM this was 128, 150, and 185 eV with a ±10 eV window (20 eV slit). The two pre-edge images are used to generate a background that is then subtracted from the post-edge image, resulting in an elemental map [Fig. 1(g)]. The thickness t of the sample should be much thinner than the mean free path λ to ensure low plural scattering and mass thickness contributions to the image;^[Reference Egerton^15] in Fig. 1(g) t/λ is on average 0.2.

The comparison between the thickness and elemental maps serve as confirmation that contrast in the elemental map is from elemental contrast and not thickness variations. The elemental map is directly proportional to the amount of sulfur, such that thicker regions are expected to show stronger sulfur signal even if the composition within the film is homogeneous and spatially invariant. Thus, differences between the sulfur map and thickness map indicate enrichment of sulfur composition within the film. Furthermore, a map of the sulfur composition (averaged over the thickness of the film) can be extracted by dividing the elemental map by the thickness map, as previously outlined.^[Reference Kesava, Fei, Rimshaw, Wang, Hexemer, Asbury, Heeney and Gomez^18]

Previous work has demonstrated similar core-loss elemental maps as the one shown in Fig. 1 for P3HT/PCBM mixtures,^[Reference Guo, Allen, Lee, Le, Song, Ciston, Minor and Gomez^5, Reference Kozub, Vakhshouri, Orme, Wang, Hexemer and Gomez^7, Reference Mor, Le, Vakhshouri, Kozub and Gomez^8, Reference Vakhshouri, Kesava, Kozub and Gomez^19–Reference Guo, Kozub, Kesava, Wang, Hexemer and Gomez^22] as well as for other conjugated polymer mixtures.^[Reference Kozub, Vakhshouri, Kesava, Wang, Hexemer and Gomez^6, Reference Kesava, Fei, Rimshaw, Wang, Hexemer, Asbury, Heeney and Gomez^18, Reference Kuei and Gomez^23–Reference Mao, Senevirathna, Liao, Gu, Kesava, Guo, Gomez and Sauve^26] The goal of the following sections is to systematically outline the crucial parameters and common pitfalls that are needed to successfully generate elemental maps of polymeric systems. As we describe below, we propose that a complete set of images include a bright field micrograph, a thickness map, and an elemental map of the same region to minimize the possibility of artifacts affecting imaging results.

Focusing at zero-loss

Focusing at zero-loss is difficult because the lack of contrast in polymeric materials often causes the zero-loss image to look the same even at different defocus values. Ideally, we would be able to find focus at the sulfur edge, but in the case of electron-transparent polymer films, the counts at the sulfur edge are too low to practically tune the defocus. Furthermore, in some cases, elemental enrichment is anti-correlated with mass density, such that contrast at an elemental edge may be minimal or diminished. A common practice for EFTEM is to use the plasmon energy-loss to find focus, but contrast can also be weak in the plasmon region due to the broad, overlapping plasmon resonances between organic materials. To overcome these challenges, we have found that the use of Fast Fourier Transforms (FFTs) of the zero-loss image can guide the operator in finding focus. FFTs are routinely used to minimize astigmatism, and we propose that FFTs can also be used to minimize defocus when imaging low-contrast soft materials. As shown in Fig. 2, zero-loss images of P3HT/PCBM mixtures show little contrast, where features mostly correspond to large-scale film thickness fluctuations. Thus, focusing by eye is challenging. Corresponding elemental maps show significant loss of resolution when the zero-loss image is out of focus; in this case, about 2–3 microns out of focus will cause a loss of resolution in 10 nm features (Fig. 2). The overall challenge of focusing for smaller features that are apparent in the bright field images (that require smaller defocus) can be resolved by relying on the FFTs to guide the operator to minimal defocus. The addition of sulfur-containing nanoparticles that do not disrupt morphology could also be a solution for perfecting focus of soft materials when taking sulfur elemental maps.

Figure 2.

Zero-loss images (top row), corresponding FFTs (middle row), and resultant sulfur elemental maps (bottom row) at various defocus values. While all zero-loss images look similar, a few hundred nanometers of defocus can have a significant effect on resultant elemental maps.

Using an objective aperture

We demonstrate that the use of an objective aperture improves contrast in elemental maps of polymeric materials (Fig. 3). The role of the objective aperture is to filter out electrons that have been scattered to high angles. Incoherent scattering, such as from multiple scattering, is angle-independent and will add a background or noise to images. From Bethe theory, the differential cross section for inelastic scattering decreases quickly at high scattering angles.^[Reference Egerton^15] We hypothesize that the objective aperture is important because it removes electrons scattered to high angles that are mostly due to incoherent scattering; when the image formation process relies on inelastically scattered electrons the fraction of incoherently scattered electrons is likely higher. Although an alternative hypothesis is that the objective aperture is adding elastic contrast (mass contrast) to the image, thickness maps [Fig. 1(c)] do not show the same contrast as the sulfur maps shown in Fig. 1(g) or Fig. 3.

Figure 3.

Sulfur elemental maps of P3HT/PCBM films acquired with an objective aperture (left) and without an objective aperture (right).

Maximizing signal-to-noise and counts

In order to generate high-quality sulfur maps, it is important to maximize signal-to-noise and to ensure that counts are above the noise level of the detector. Counts can be maximized by centering the beam on the charge-coupled device (CCD) and spreading the beam so that its circumference just barely surpasses the CCD screen; care must be taken that the curvature of the beam does not introduce defocus at the image edges. Qualitatively, sulfur maps taken with increasing exposure times (and therefore higher counts) show improved resolution (Fig. 4). Line scans of post-edge images show that signal-to-noise increases with increasing exposure time (Supplementary Fig. S1). Figure 4 and Supplementary Fig. S1 suggest that for a GIF Tridiem detector (UltraScan sensor with 2048 × 2048 pixels), about at least 200 counts is needed for all energy-filtered images to generate high-quality sulfur maps. We note that high doses are detrimental for soft materials; however, for heavy elements like sulfur, which are unlikely to diffuse, high doses are tolerated, such that we are effectively imaging sulfur atoms in a carbon-rich matrix due to damage.

Figure 4.

Source images and sulfur maps taken with a 40 s exposure (top), 20 s exposure (middle), and 10 s exposure (bottom). CCD counts are included for each source image and average peak-to-noise ratios are reported for each sulfur elemental map.

To investigate the correlation between signal-to-noise and exposure time in more detail, we calculate a peak-to-noise ratio, which we define as the peak amplitude of a given feature in a line scan divided by the variance in intensity with respect to a moving average. This is exemplified in Supplementary Fig. S2 for one fiber feature; peak-to-noise ratios reported in Fig. 4 are averaged from three individual features. Peak-to-noise ratios approximately increase with the square root of exposure time.

Binning combines charges collected by adjacent CCD pixels; therefore, increased binning leads to an increase in signal-to-noise at the cost of resolution. We demonstrate elemental mapping of P3HT/PCBM using a range of binning at the same exposure time of 40 s (Supplementary Fig. S3), where the signal-to-noise increases with binning (Supplementary Fig. S4). The pixel size, however, increases from 0.41 nm for binning 1 to 3.31 nm for binning 8 at a magnification of 33,800x. The peak-to-noise ratio at first increases linearly with increased binning but appears to saturate after binning 4, suggesting binning 4 is optimum for this feature size of interest (ca. 10 nm) at this magnification. Thus, careful optimization of both exposure time and binning are necessary to optimize imaging conditions. Furthermore, for samples with severe drift, a lower exposure time combined with higher binning is often ideal, as long as the trade-off with loss of resolution is acceptable for the feature size of interest. Although in principle counts can be increased to achieve the needed counts for high-quality elemental maps generated from core-loss energy-filtered images, in practice drift can limit the exposure time. A possibility to overcome this limitation is to use a series of short images that are drift corrected to achieve the needed counts, as is commonly done in single-particle reconstructions.^[Reference Doerr^27]

Another strategy for increasing signal-to-noise is the use of a direct electron detector.^[Reference Hart, Lang, Leff, Longo, Trevor, Twesten and Taheri^28] While a traditional CCD converts primary electrons into photons via a scintillator, a direct electron detector bypasses the scintillation step, thus leading to higher signal-to-noise. As shown in Supplementary Fig. S5, the peak-to-noise ratio of P3HT/PCBM sulfur elemental maps is approximately 1.5 higher for the K2 direct electron detector compared with a traditional UltraScan for the same sample at identical imaging conditions. Although these images are similar to elemental maps shown in Figs. 1–4, the microstructure differs slightly because a different P3HT batch was used. Nevertheless, Supplementary Fig. S5 demonstrates that for the same sample at identical imaging conditions, use of a direct electron detector can improve the signal-to-noise of a sulfur elemental map for polymeric materials.

Although this work is focused on sulfur elemental mapping, the outlined strategies are applicable for mapping at other edges, such as carbon, nitrogen, oxygen, and fluorine. It is often informative to map at two edges when possible, to further confirm the role of thickness variations in elemental maps. For example, demonstrating a contrast inversion when mapping two different elements eliminates the possibility that both maps are representative of thickness variations.^[Reference Kozub, Vakhshouri, Orme, Wang, Hexemer and Gomez^7] We also expect that our approach outlined here can aid in mapping at the plasmon region (5 to 30 eV). Background subtraction and accounting for thickness variations require more images than the three-window method due to broad overlapping plasmon peaks for most materials, such that approaches like principal component analysis are needed.^[Reference Guo, Allen, Lee, Le, Song, Ciston, Minor and Gomez^5, Reference Allen, Watanabe, Lee, Balsara and Minor^12, Reference Yakovlev and Libera^29–Reference Perez, Rogers, Brady, Sun, Welch, Schmidt, Toney, Jinnai, Heeger, Chabinyc, Bazan and Kramer^31] Focusing on the plasmon region is easier simply because of the higher signal (when compared with core-loss imaging) that allows focusing directly at the energy loss of interest. Nevertheless, optimization of the imaging conditions is also crucial for plasmon imaging to aid in the identification of the contributions to the resulting plasmon maps.