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Files |
file | anacutoff.h |
| defines a struct to hold cutoffs and constants for the program, and define their default values as well.
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file | asymmetry.c |
| contains function to calculate, sort and evaluate the asymmetry score in each lane
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file | asymmetry.h |
| header file for asymmetry.c, contains functions for calculating and evaluating the asymmetry in each lane
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file | border.c |
| contains function to find the outer most lanes by first finding the outer most marker lanes.
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file | border.h |
| header file for border.c, contains function to find the outer most lanes by first finding the outer most marker lanes.
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file | checknogrowths.c |
| contains functions to extract the median row for each lane and outputs the thresholded roughness and maxdiff to a file
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file | checknogrowths.h |
| header file for checknogrowths.c, contains functions to extract the median row for each lane and outputs the thresholded roughness and maxdiff to a file
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file | checkresult.c |
file | checkresult.h |
file | diagnostic.c |
| contains function to write a PNG of the gel with node and peak position information overlaid. Interpolated peaks are shown in red for diagnostic purposes
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file | diagnostic.h |
| header file for diagnostic.c, contains function to write a PNG of the gel with node and peak position information overlaid. Interpolated peaks are shown in red for diagnostic purposes
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file | fftw3.h |
file | findlanes.c |
| file holding the main for findlanes
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file | findlanes.h |
| header file for findlanes.c holds the default gel parameters
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file | gelinfo.h |
file | mapto8bits.c |
| contains functino to map a 16 bit image to 8 bit and stretches its dymanic range to be full scale
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file | mapto8bits.h |
| header file for mapto8bits.c, maps a 16 bit image to 8 bit and stretches its dymanic range to be full scale
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file | medianfilter.c |
| implements a 3x3 then 1x9 median filter for a PIX
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file | medianfilter.h |
| header file for medianfilter.c, implements a 3x3 then 1x9 median filter for a PIX
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file | node.c |
| implements functions for extrapolating nodes to the edge, adjusting the boundary nodes, and writing lanes information to file
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file | node.h |
| header file for node.c, implements functions for extrapolating nodes to the edge, adjusting the boundary nodes, and writing lanes information to file
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file | noisedetect.c |
| contains functions to find multi-lane noise
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file | noisedetect.h |
| header file for noisedetect.c, contains functions to find multi-lane noise
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file | peaks.c |
| contains function for finding guassian-like peaks in a vector of intensity
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file | peaks.h |
| header file for peak.c, contains function for finding guassian-like peaks in a vector of intensity
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file | position.c |
| contains functions for peak matching and curvature calculations and output
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file | position.h |
| header file for position.c, contains functions for peak matching and curvature calculations and output
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file | readlanes.c |
| read and parse lanes file in gel directory for node and peak positions for generation of traces16 without re-lanetracking
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file | readlanes.h |
| header file for readlanes.h, read and parse lanes file in gel directory for node and peak positions for generation of traces16 without re-lanetracking
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file | readtiff.c |
| holds function to read in 16bit tiff file (image.tif)
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file | readtiff.h |
| header file for readtiff.c, holds function to read in 16bit tiff file (image.tif)
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file | spacing.c |
| contains algorithm for finding the dominant lane spacing in the gel as well as the dominant spacing of each zone
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file | spacing.h |
| header file for spacing.c, contains algorithm for finding the dominant lane spacing in the gel as well as the dominant spacing of each zone
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file | toneadjust.c |
| holds functions for tone mapping for contrast enhancement using a bezier curve
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file | toneadjust.h |
| header file for toneadjust.c, has function for tone mapping for contrast enhancement using a bezier curve
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file | traces16.c |
| contains function to write lane straightened image to traces16 file
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file | traces16.h |
| header file for traces16.c, contains function to write lane straightened image to traces16 file
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file | zone.c |
| contains functions related to the initialization operations of zone boundary, nodes, and zoneprojection
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file | zone.h |
| header file for zone.c, contains functions related to the initialization operations of zone boundary, nodes, and zoneprojection
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