6.9 Charge Transfer Efficiency

The charge transfer efficiency (CTE) of the UVIS detector has been steadily declining since its installation in 2009 onboard HST.  Faint sources in particular can suffer large flux losses or even be lost entirely if observations are not planned carefully.  In this section, we describe the effect of CTE losses on data, observational strategies for minimizing losses, and data analysis techniques that can provide some correction for CTE losses.

(tick)For the latest information about CTE on the UVIS detector, see the WFC3 CTE webpage.

6.9.1 Overview

The regular flux of energetic protons and electrons that HST encounters in its frequent passages through the South Atlantic Anomaly results in progressive damage to the silicon lattice of its CCD detectors.  This damage manifests itself as an increase in the number of hot pixels, an increase in the overall dark current, and an increase in the population of charge traps.

The effect of hot pixels, about 1000 new/day/chip using a threshold of 54e/hr/pix, is addressed with anneal procedures, dark calibration files, and dithering. The anneal procedures, which are performed monthly, warm the detectors to +20° C and restore some of the hot pixels to their nominal levels.  Dark calibration files (running averages of daily dark images) can provide reasonable identification of hot pixels as well as a calibration for overall dark current (see Section 5.4.8).  The calibration darks allow stable hot pixels and dark current to be subtracted from science images in the calibration pipeline.  Since not all hot pixels are stable, the corrections are imperfect, but dithering can help reduce any residual impact of hot pixels in final image stacks.

The effect of charge traps is more difficult to address, as the damage to the detector is cumulative and appears irreversible.  The traps prevent photo-electrons from moving perfectly from pixel to pixel during readout.  This causes a loss in flux from sources, as well as a systematic shift in the source centroid as some of its charge is trapped and then slowly released during the readout process.  The majority of the trapped charge is released within a half-dozen pixel shifts, as can be readily seen in the visible charge trails that follow hot pixels, cosmic rays, and bright stars.  A low percentage of the initial signal can be seen extending out to ~50 pixels in length (see Figure 6.22).

Figure 6.22: Residual Charge in Pixels Trailing Hot Pixels


Observed charge trailing 100, 1000, and 10000 e hot pixels in WFC3 (blue) and ACS (green) images from May 2012.
CTE flux losses at any given time depend on a variety of factors, including:

  1. The number of rows between source and readout amplifier:  sources farther from the amplifiers (i.e., those closer to the chip gaps) require more parallel transfers before they are read out and thus encounter more traps.
  2. The intrinsic brightness of the source:  fainter sources lose proportionally more charge than brighter sources. Very bright sources (those with > 104 electrons) suffer relatively small amounts of CTE loss (a few percent). (Figure 6.20.)

  3. The image background:  a higher background keeps many of the charge traps filled, thereby minimizing flux losses during readout of the source signal.  WFC3/UVIS images can have very low intrinsic backgrounds due to the low detector readnoise and dark current as well as the small pixels of its CCDs, which intercept less sky.  Furthermore, the WFC3 UV and narrowband filters have exceptionally low sky backgrounds.  It is when backgrounds are low that CTE losses can become pathological.

  4. Source size:  because of the finite size of the telescope and its optics, point sources do not appear as delta functions on the detector, but rather as point-spread functions with a distribution of pixels above the background.  The downstream pixels of a source can shield its upstream pixels from CTE loss by filling some of the charge traps.  Resolved objects experience even more self-shielding.

For all these reasons, the impact of imperfect CTE for a particular object will depend on the location and morphology of the source and on the distribution of electrons in the field of view (from sources, background, cosmic rays, and hot pixels).  The magnitude of the CTE loss increases continuously as new charge traps form over time.  A recent ISR, WFC3 ISR 2021-09, summarizes our current understanding of CTE in WFC3/UVIS and the CTE website provides an up-to-date list of tools, tips, and insights.  

The remainder of this section will discuss the available options for mitigating the impact of CTE losses and their associated costs. Broadly, the options fall into two categories: strategies to implement before data acquisition (i.e., optimizing the observations during the proposal and planning stage, including the use of post-flash if needed), and corrections applied during image analysis after the images have been acquired (i.e., formula- or table-based corrections or pixel-based image reconstruction).

6.9.2 CTE-Loss Mitigation Before Data Acquisition: Observation Planning

1) Consider the placement of the target within the field of view.  When the target is small, it can be placed close to a readout amplifier.  This reduces the number of parallel transfers during readout, thereby minimizing CTE losses for the target.  This can be done by using a subarray aperture (with suffix -SUB) or by placing the target at the reference position of a subarray aperture, but reading out the entire detector (aperture name with suffix -CTE, discussed below).  One advantage of subarrays is that many short exposures fit within a single orbit (See Figure 6.2.), since only a small portion of the full field of view of the detector is read out and stored.  Subarray apertures UVIS2-C1K1C-SUB and UVIS2-C512C-SUB (see Table 6.1) place the target 512 and 256 pixels, respectively, from the edges of the UVIS detector near amplifier C and read out 1025x1024 and 513x512 science pixels, respectively.  

Observers can use the apertures UVIS2-C1K1C-CTE and UVIS2-C512C-CTE to place the target at the same reference positions as the above subarrays, yet they still read out the full detector instead of only a subarray.  Full frames can be taken efficiently when the exposures are 348 sec or longer (see Section 10.3.1).  Even when a small target is placed near the readout at the bottom of the detector, a full-frame exposure provides more context and enriches the archival value of the exposure.  POS-TARGs can also be used to move the target to the lower part of the C quadrant (e.g., negative POS-TARG X and negative POS-TARG Y) to reduce CTE losses even further (See Section 6.4.4 for reasons to prefer quadrant C over the other quadrants).

Another approach, suitable for moderately populated fields involves obtaining observations at multiple spacecraft roll angles.  In this case, the different roll angles (ideally at or near 90 degrees) will result in sources having large variations in the number of pixels over which they must be transferred during readout. This permits a direct assessment of the reliability of the available CTE-correction calibrations that can be applied during post-processing (discussed in more detail below in Section 6.9.3).

If observations are being taken on a field larger than the instantaneous field of view of the cameras, then stepping in the Y direction (i.e., along the CCD columns) with some degree of overlap will place some sources at both small and large distances from the transfer register, thus permitting a direct assessment of the reliability of the CTE corrections applied during data processing (see section on formula/table-based corrections below in Section 6.9.3).

2) Increase the image background.  This can be done by lengthening exposure times, using a broader filter, and/or applying an internal background (post-flash). Dividing observations into fewer, but longer, exposures has several benefits.  It provides more natural sky background (thus requiring less post-flash and thereby less added noise), it increases the source signal relative to the readnoise and any added post-flash, and it saves on overheads (each full-frame requires ~90 sec to read out).  Ensuring that images with faint sources contain a minimum of 20 e-/pix total background (dark+sky+post-flash, if needed) is a crucial CTE mitigation strategy for many WFC3/UVIS science proposals in 2020 and beyond (see WFC3 ISR 2020-08).

On-orbit experimentation has shown that CTE losses are a non-linear function of both the source and image background signals.  A faint source in a low-background image will lose a significantly larger proportion of its signal than a similar source in a high-background image.  In some cases, faint sources can even disappear completely during the readout transfers, as illustrated in Figure 6.23 below.   It is also clear from the curves that CTE affects astrometry as well as photometry:  the profiles below are shifted to the right (i.e., away from the readout register), since a star's downstream electrons are more likely to be lost than its upstream electrons.

Figure 6.23: Impact of background on source recovery (epoch late 2020).

A reproduction of Figure 17 from WFC3 ISR 2021-09.  The three panels show three "composite" point sources taken from actual images of real stars with total fluxes of 100 e-, 40 e-, and 16 e-, respectively.  The sources were at the top of the detector (2000 pixels from the readout) on eight different image backgrounds ranging from 12 e- to 34 e-.  The connected dots show the profiles on top of the various backgrounds, while the curves at the bottom are background-subtracted.  The heavy black line shows the true signal expected with no CTE loss.  These curves provide a direct sense of the impact that imperfect CTE has on star images. 

A more quantitative demonstration of how relatively low levels of background can significantly improve the CTE and increase the S/N of very faint sources is provided in Figure 6.24.  The background level has a large impact on the photometry of faint sources, but does not have a large effect on bright sources.  WFC3 ISR 2021-13 distills many such plots for both photometry and astrometry into tables so that users can anticipate or correct for losses.

Figure 6.24: Quantitative CTE-related photometric losses.


Reproduced from Figure 3 of WFC3 ISR 2021-13.  Photometric losses for stars in late 2020 as a function of instrumental magnitude shown for six different backgrounds.  Instrumental magnitude is defined as:   m = -2.5 log10(flux), where the flux is measured over a 5x5-pixel box and scaled according to a PSF model to correspond to the flux within a 10-pixel radius.  The flux in the stars' central pixels are provided along the top of the plot as a reference.   
The required increase in background necessary to provide effective CTE-loss mitigation can sometimes be obtained simply by lengthening exposure times or by using a broad filter.  WFC3 ISR 2012-12 examines the background achieved in actual WFC3/UVIS observations with various exposure times through various filters. The plots in the appendix of that ISR show the distribution of backgrounds achieved as a function of exposure time for all the external observations in the archive through 2012.  Exposures longer than 1000s through wide-band filters with wavelengths F475W and longer have natural backgrounds greater than 20 e/pix. The UV and medium/narrow-band filters will have relatively low natural backgrounds, and some post-flash is recommended as a means of boosting the total background.  While it may seem counter-productive from a S/N perspective to use post-flash to increase the background in images, it will significantly increase the efficiency of the charge transfer for faint sources and, as a result, source signal can accumulate much faster than the noise increases.  Observers with faint sources in narrowband or UV filters or with science programs requiring the co-addition of multiple images to reach very faint limits should plan to achieve a total background level of ~20 e/pix per exposure.  Figure 6.24 represents this stacking situation.  Although 20 e/pix is our general recommendation (as of late 2021) to ensure a minimum of 50% flux preservation, concerned observers can themselves balance the level of post-flash used to mitigate CTE and the additional noise penalty incurred from adding extra background given their particular targets of interest. The tables and plots in WFC3 ISR 2021-09 can help with this.  Note that the location of the target on the detector also affects the calculation.

Once users determine the optimal background level for their observations, they need to estimate the natural background to determine how much post-flash to add.  The Exposure Time Calculator provides such estimates, including contributions from sky, dark, zodiacal light, earthshine, airglow, and a selected level of post-flash.  Alternatively, WFC3 ISR 2012-12 (described above) provides more empirical assessments.  In general, if the natural background of the exposure is expected to be higher than 20 e/pix, then there is no need to add post-flash.  For images with very low background levels, enough post-flash should be applied to achieve the desired total background (natural + post-flash).

Observers invoke post-flash in APT by choosing the exposure optional parameter ‘FLASH’ and specifying the desired number of electrons per pixel to be added to the image using the LED post-flash lamp. (Section 12.2 in the Phase II Proposal Instructions.) The flash is performed on WFC3 after the shutter has closed at the end of the exposure: an LED is activated to illuminate the side of the shutter blade facing the CCD detector.  The experience so far with these LEDs (corroborated by the design analysis) indicates that the illumination pattern is very repeatable (to much better than 1%), and it is similar for the two sides of the shutter blade.  The intensity is likewise very repeatable, as expected. The brightness of the flash has shown fluctuations of 1.2% rms, with a long-term stability of ~0.1% (WFC3 ISR 2017-03).  Calibration reference files have been delivered to CDBS for the calibration of exposures using post-flash (WFC3 ISR 2017-13).  It is worth noting that, in the nominal pipeline products, the added post-flash is removed by CAL/WFC3, along with the dark current, so that the background in the pipeline products reflects the pure astronomical background.  If needed, one can set the header keyword FLASHCORR to 'OMIT' to turn off subtraction of the post-flash and manually reprocess the data through calwf3.

The main disadvantage of post-flash is, of course, the increase in the background noise. In the worst case, a short exposure with low background and dark current would require the addition of about 20 e/pix of post-flash. Thus the original readout noise of ~3.1 electrons is effectively increased to 5.4 e in un-binned exposures. (See Section 9.6 for S/N equations.)  In most cases, however, the impact will be significantly less severe, as exposures will generally contain some natural background already and will not require a full 20 e/pix post-flash. Also, observers can often take fewer exposures, which lessens both the need for and the impact of post-flash.

Finally, please note that even with moderate backgrounds of 20 electrons or more, larger charge packets from brighter stars, hotter pixels, or cosmic rays will still experience some loss/trailing of their initial distribution of electrons.  Therefore, all measurements will require some correction for CTE losses.


3) Use charge injection. This option has been deprecated, but is described here for the sake of completeness.  When CTE losses were first addressed, this mode was included as an observing strategy option for CTE-loss mitigation, since the noise penalty from charge injection was significantly lower than Poisson noise of post-flash. However, in practice it is no longer considered to be as useful as optimizing the placement of targets or optimizing the background with exposure times and post-flash. Use of charge-injection will be permitted only in exceptional cases where the science justifies it.  Observers who wish to use this mode are advised to consult their Contact Scientist or contact the help desk at http://hsthelp.stsci.edu.

Charge injection is performed by electronically inserting charge as the chip is initialized for the exposure.  Charge is injected either into all rows or spaced every 10, 17, or 25 rows.  Only the 17-row spacing is supported as of mid-2012.  The injected signal is ~15000 electrons (not adjustable) and it results in only about18 electrons of additional noise in the injected rows (Baggett et al. 2011). The rows above or below the charge-injected rows also have between 3 and 7 electrons of added noise due to charge-transfer effects. The charge-injection capability was supported through Cycle 19 (2012), but experience has demonstrated that it is useful for very few types of observations.  The primary drawbacks are (1) the noise level in the injected and adjacent rows, (2) the uneven degree of protection from charge trapping in the rows between the injected charge rows, (3) a very difficult calibration challenge posed by the combination of sources in the field and the charge in injected rows, which give rise to different levels of CTE at different places within the image.  Furthermore, the strong dependence of CTE losses on image background in the injected images makes it challenging to produce a suitable calibration, as typically there will be a mismatch in image backgrounds between the charge-injection-calibration frames and science frames (i.e., differing levels of CTE losses).

6.9.3 CTE-Loss Mitigation After Data Acquisition:  Post-Observation Image Corrections

1) Apply formula/table-based corrections for aperture photometry.  One way to correct CTE losses after the images have been acquired is to apply an empirical photometric correction to the measurement via either formulae or tables.  The current formula-based results were constructed from stellar aperture photometry, and they provide corrections for CTE losses as a function of observation date, image background, source flux, and source distance from the amplifiers. Figure 6.25 summarizes the analysis from WFC3 ISR 2021-03.  Plots such as these can be used either to anticipate losses or to correct for them.

As the plots show, larger corrections are required for fainter sources and/or sources observed on lower image backgrounds. The top left panel represents the worst-case scenario: for sources in exposures taken with a narrowband filter, with typically ~2 e/pix background.  Flux losses in late 2020 for sources far from the readout amplifier are ~1 magnitude for the faintest sources measured (a few hundred electrons within a 3-pixel radius aperture).  The top right panel shows that a background of ~14 e/pix (~2 e natural plus 12 e post-flash) produces a noticeable improvement in CTE:  the faintest sources experience about 0.4 mag of losses while moderately bright sources (with a few thousand electrons within a 3-pixel radius aperture) experience less than 0.2 mag of flux loss.

The lower panels in Figure 6.25 illustrate the efficacy of applying the pixel-based CTE correction (discussed in topic 2 below) to the data in the upper panels. Note that these results shown are for small apertures.  Corrections for larger apertures will be smaller, as more of the trailed charge will end up getting released within the aperture.

The flux-loss information in these plots has been distilled into formulae, following previous treatments in WFC3 ISR 2015-03, WFC3 ISR 2016-17, and WFC3 ISR 2017-09.  In brief, the flux loss is modeled as a function of source brightness, observation date, image-background level, and vertical distance from the readout amplifier and fit with a 2nd-degree polynomial whose coefficients are provided in WFC3 ISR 2021-03 along with the analysis to allow observers to estimate flux corrections for their point-source photometry.


Figure 6.25: CTE Losses in FLT and FLC images as a function of star flux, observation date, and image background level.

Reproduced from Figure 4 of WFC3 ISR 2021-03.  CTE losses in magnitudes per 2051 detector-row shifts as a function of star flux (within a 3-pixel radius) and year of observation (color-coded). The top panels show results for data without application of the pixel-based CTE correction, low background (~ 2e-/pix) at left and intermediate background (~14 e-/pix total) at right. Data shown in the bottom row panels have also had the pixel-based CTE correction applied. Diamonds and circles are based on NGC 104 (47 Tuc) and the sparse cluster NGC 6791; lines denote the best fits.
As a complement to the formulaic corrections discussed above, WFC3 ISR 2021-13 provides the photometric corrections in tabular form, along with providing corrections for astrometry as well.  The two-dimensional tables specify the photometric losses and astrometric shifts for a source at row 2000 at epoch 2021.0 as a function of sky background and true source flux.  The table values can be scaled up (or down) linearly to correspond to epochs after (or before) the reference epoch, or locations on the detector above (or below) the reference row.   Since the tables are provided in terms of the true flux, one must use iteration to turn an observed flux into a true flux.  A soon-to-be-released software package will make use of these tables to directly pair source measurement with correction (ISR in prep., Anderson).

The formula- and table-based correction approaches can be effective for isolated point sources on flat backgrounds, but they are less suitable for extended sources or sources in crowded regions.  However, one benefit of the formula/table-based corrections is that they are not impacted by the possibility of readnoise amplification, which can be a concern for faint sources in the pixel-based reconstruction described below.  Photometric corrections are also useful for planning observations: they allow an estimate of the expected CTE losses for point-like sources in a planned observation for a given background and source flux.

2) Apply the empirical pixel-based correction algorithm.  The ACS team developed and implemented a post-observation correction algorithm employing the Anderson and Bedin methodology (2010; PASP 122 1035).  A similar capability was made available for WFC3, initially in the form of a FORTRAN routine accessible from the WFC3 CTE webpage.  In Feb 2016, the pixel-based correction was incorporated into calwf3 in the MAST pipeline, which now produces FLC and DRC data products as CTE-corrected versions of FLT and DRZ products.  An updated v2.0 version of this correction was made available via the pipeline in 2021 (described in WFC3 ISR 2021-09, performance evaluated in WFC3 ISR 2021-06).

The charge-transfer model is calibrated by studying hot pixels, which as serve delta-function probes of the charge-transfer process.  In the absence of CTE losses, the full charge of a hot pixel is entirely contained within a single pixel.  If some of the hot pixel charge is trapped due to imperfect CTE, there will be fewer electrons in the hot pixel itself, and more in the trailing pixels (see Figure 6.22).  The original charge-transfer model involved examining the trails to determine how many electrons were lost from each original delta-function hot pixel, a strategy that works well as long as the hot pixels suffer moderate fractional losses.  To model CTE losses at background/source levels where losses are significant, we devised a strategy of pairing long and short darks to tease out the impact of CTE. The procedure for constraining the model is described in detail in WFC3 ISR 2021-09.

The pixel-based correction algorithm takes the charge-transfer model and uses an iterative forward-modeling procedure to determine from the observed distribution of pixel values what original pixel distribution could result in the observations.  The resulting correction essentially redistributes the counts in the image, “putting the electrons back where they belong” (Anderson et al. 2012).

While the pixel-based algorithm has been successful at removing trails behind stars, cosmic rays, and hot pixels, it has one serious and fundamental limitation:  it cannot restore any lost S/N in the image.  Faint sources and faint features of extended sources may be so strongly affected by CTE losses that they become undetectable and cannot be recovered (e.g., see Figure 6.23 and Figure 6.24).  

Furthermore, the pixel-based reconstruction is essentially a deconvolution algorithm, and as such it can amplify noise or sometimes generate image artifacts. Over the years, CTE losses for faint sources on low backgrounds has become so severe that it is impossible to reconstruct the signal from the faint sources without incurring pathological readnoise amplification.  As a general rule of thumb, if CTE losses are greater than 10%, then the reconstruction becomes problematic.  If the losses are greater than 25%, then it becomes impossible.  The v2.0 algorithm deliberately avoids readnoise amplification at the expense of leaving faint sources uncorrected.  As such, the FLC images should be used to measure only moderate-brightness sources (S/N>10).   Kuhn et al. in WFC3 ISR 2021-06 provides a detailed comparison of FLT and FLC photometry against the known photometry.

The pixel-based correction algorithm also does not correct for sink pixels, which contain a number of charge traps (WFC3 ISR 2014-19). They comprise about 0.05% of the UVIS pixels, but can affect up to 1% of the pixels when the background is low.  A calibration program to identify sink pixels and pixels impacted by them has been carried out. The strategy for flagging these pixels is presented in WFC3 ISR 2014-22.  Since February 23, 2016, when calwf3 version 3.3 was implemented in the pipeline, sink pixels and their trails have been identified in the DQI array with value 1024 (see Table E.2).

Serial CTE losses (along the X direction on the detector) can easily be seen in deep exposures of the point spread function (e.g. Figure 1 in WFC3 ISR 2013-13). The pixel-based correction algorithm currently corrects only for parallel CTE losses (i.e., those along the Y direction on the detector). Serial CTE losses affect the X coordinate of bright stars and faint stars at the level of 0.0015 pixel and 0.004 pixel, respectively (WFC3 ISR 2014-02), significantly less than the typical single-exposure measurement precision of 0.01 pixel for bright stars.

We end this CTE Mitigation section by noting that, depending on the science goals, a single mitigation method may not be sufficient for some programs. Observers, particularly those with faint sources, will want to consider applying both pre- and post-observation CTE-loss mitigation strategies, e.g., increasing the image background to ~20 e/pix to reduce CTE effects followed by an application of either the formula/table-based or  pixel-based corrections, depending on the nature of their sources.  We note that the pixel-based correction algorithms are unable to operate on binned data, even aside from the fact that binning is an ineffective way of increasing the detectability of faint sources that may be impacted by CTE losses (See Section 6.4.4).

For the most current information on the WFC3 CTE and mitigation options, please refer to the page CTE webpage at:
http://www.stsci.edu/hst/instrumentation/wfc3/performance/cte