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pipeline:subtract:avgfilt [2021/02/01 15:22] shaikh created |
pipeline:subtract:avgfilt [2021/02/12 11:32] shaikh [Reference] |
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Choose a low-pass filter radius so that a permissive (i.e., low) surface threshold can be used in Chimera. | Choose a low-pass filter radius so that a permissive (i.e., low) surface threshold can be used in Chimera. | ||
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Note 1: If you already have an averaged map, or don't have two maps to average, skip the ' | Note 1: If you already have an averaged map, or don't have two maps to average, skip the ' | ||
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Note 2: Low-pass filter radius should be in units of Angstroms if pixel size (--apix) is provided. | Note 2: Low-pass filter radius should be in units of Angstroms if pixel size (--apix) is provided. | ||
- | \\ __2. Locate regions to be subtracted __: | + | \\ __2. Locate regions to be subtracted __ |
- | \\ __3. Mask a soft mask of the region to be excluded __: | + | \\ __3. [[sp_mask|Mask a soft mask of the region to be excluded]] __ |
- | \\ __4. Compute re-projections of map to be subtracted, and subtract them from the original images __: | + | \\ __4. [[projsubtract|Compute re-projections of map to be subtracted, and subtract them from the original images]] __ |
- | \\ __5. Compute reconstruction of density remaining after signal-subtraction __: | + | \\ __5. [[pipeline: |
- | \\ __6. Center map of the remaining density __: | + | \\ __6. [[centershift|Center map of the remaining density]] __ |
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; vol_avg_fil.hdf : Low-pass filtered average of input half-set maps. | ; vol_avg_fil.hdf : Low-pass filtered average of input half-set maps. | ||
; input_filtered.hdf : Low-pass filtered input map. | ; input_filtered.hdf : Low-pass filtered input map. | ||
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===== Description ===== | ===== Description ===== | ||
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==== Reference ==== | ==== Reference ==== | ||
+ | Bai XC, Yan C, Yang G, Lu P, Ma D, Sun L, Zhou R, Scheres SHW, Shi Y. (2015) "An atomic structure of human γ-secretase." | ||
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==== Developer Notes ==== | ==== Developer Notes ==== |