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