Appion

h1. Direct Detector Frame Processing

This section enables the user to create gain/dark corrected frame stack in mrc format from raw movie frames generated by direct detectors such as Direct Electron DE12 or DE20, Gatan K2 Summit.

FEI Falcon II "raw" frames are already gain/dark corrected.  The frame stack making process does not do that.  However, it compiles the individual images as standard 32-bit float mrc image stack in this process and perform drift correction if so requested.

h2. Gain/Dark Correction of movie frames

# [[appion:GainDark correction of the raw frame with or without drift correction|makeDDRawFrameStack]]: Frames obtained from DD are yet corrected for variation of pixel response.  In the case of analog detection such as those performed by DE series and K2 Linear mode, they are also not dark corrected.  This process performs these correction.  Also, it can be followed by frame alignment.

# [[appion:Catch up DD frame alignment]]: Using defergpu option in [[GainDark correction of the raw frame with or without drift correction|makeDDRawFrameStack]] when aligning, the gain/dark correction and alignment are broken up for more efficient use of gpu-capable host.  In such a case, this process is launched.

h2. Appion SideBar Snapshot:

!http://emg.nysbc.org/attachments/2278!

h2. Notes, Comments, and Suggestions:

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[[Appion Processing|^ Appion Processing]] 

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