Directories
¶
| Path | Synopsis |
|---|---|
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Package color has functions for create color scales and color transformations.
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Package color has functions for create color scales and color transformations. |
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Package correlation calculates the correlation between matrices or vectors.
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Package correlation calculates the correlation between matrices or vectors. |
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data
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filter
Package filter filters data based on conditions, readouts and score.
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Package filter filters data based on conditions, readouts and score. |
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parser
Package parser reads csv formatted files and returns specified columns.
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Package parser reads csv formatted files and returns specified columns. |
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transform
Package transform will adjust readout values to the user's requirements.
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Package transform will adjust readout values to the user's requirements. |
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Package downsample will downsample a matrix using area averaging.
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Package downsample will downsample a matrix using area averaging. |
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Packages files has functions for interacting with the file system.
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Packages files has functions for interacting with the file system. |
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Package flags handles flag parsing
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Package flags handles flag parsing |
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Package float defines functions for float transformations.
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Package float defines functions for float transformations. |
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Package font loads and creates a context for rendering text in Arial.
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Package font loads and creates a context for rendering text in Arial. |
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Package fs creates a filesystem to use (for easy mocking) This replaces most of the filesystem and io methods from os and io.
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Package fs creates a filesystem to use (for easy mocking) This replaces most of the filesystem and io methods from os and io. |
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heatmap
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dimensions
Package dimensions calculates the dimensions for a heat map
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Package dimensions calculates the dimensions for a heat map |
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Package interactive generates files for the interactive viewer.
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Package interactive generates files for the interactive viewer. |
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heatmap
Package heatmap creates an interactive heatmap/dotplot file.
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Package heatmap creates an interactive heatmap/dotplot file. |
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scatter
Package scatter creates an interactive scatter plot file.
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Package scatter creates an interactive scatter plot file. |
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Package log writes a message to a log file or console.
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Package log writes a message to a log file or console. |
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Package mapf contains functions for manipulating maps.
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Package mapf contains functions for manipulating maps. |
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Package math defines common math operations.
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Package math defines common math operations. |
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Package matrix contains methods for operating on matrices.
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Package matrix contains methods for operating on matrices. |
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convert
Package convert has functions for convert to matrix format.
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Package convert has functions for convert to matrix format. |
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frontend
Package frontend creates matrices from frontend format.
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Package frontend creates matrices from frontend format. |
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Package minimap creates a "small" png for dotplots and heatmaps.
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Package minimap creates a "small" png for dotplots and heatmaps. |
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Package normalize has functions for normalization.
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Package normalize has functions for normalization. |
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Package parse has functions for parsing data columns.
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Package parse has functions for parsing data columns. |
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Package png has functions for generating and converting png images.
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Package png has functions for generating and converting png images. |
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heatmap
Package heatmap draws a png heatmap.
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Package heatmap draws a png heatmap. |
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uri
Package uri converts a png to a data uri.
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Package uri converts a png to a data uri. |
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read
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csv
Package csv reads csv files.
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Package csv reads csv files. |
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Package slice contains functions for manipulating slices
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Package slice contains functions for manipulating slices |
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Package sort contains functions for sorting slices.
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Package sort contains functions for sorting slices. |
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Package svg has functions for generating and converting svg files.
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Package svg has functions for generating and converting svg files. |
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convert
Package convert turns an SVG into a PNG.
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Package convert turns an SVG into a PNG. |
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dotplot
Package dotplot draws a svg dotplot.
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Package dotplot draws a svg dotplot. |
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heatmap
Package heatmap draws a svg heatmap.
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Package heatmap draws a svg heatmap. |
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scatter
Package scatter draws a svg scatter plot.
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Package scatter draws a svg scatter plot. |
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Package system has functions for profiling resource usage.
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Package system has functions for profiling resource usage. |
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tools
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analyze
Package analyze runs main analysis programs at ProHits-viz.
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Package analyze runs main analysis programs at ProHits-viz. |
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analyze/arguments
Package arguments parses and validates command line arguments.
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Package arguments parses and validates command line arguments. |
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analyze/cc
Package cc creates a scatter plot between two conditions.
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Package cc creates a scatter plot between two conditions. |
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analyze/correlation
Package correlation calculates the correlation between conditions and readouts.
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Package correlation calculates the correlation between conditions and readouts. |
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analyze/dotplot
Package dotplot clusters conditions and readouts for visualization as a dotplot.
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Package dotplot clusters conditions and readouts for visualization as a dotplot. |
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analyze/dotplot/biclustering
Package biclustering clusters data using nestedcluster by H. Choi.
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Package biclustering clusters data using nestedcluster by H. Choi. |
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analyze/dotplot/hierarchical
Package hierarchical clusters data for dot plots.
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Package hierarchical clusters data for dot plots. |
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analyze/dotplot/nocluster
Package nocluster generates dot plots based on requested condition and readout ordering.
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Package nocluster generates dot plots based on requested condition and readout ordering. |
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analyze/settings
Package settings logs analysis settings.
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Package settings logs analysis settings. |
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analyze/specificity
Package specificity creates scatter plots for condition showing readout specificty.
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Package specificity creates scatter plots for condition showing readout specificty. |
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analyze/validate/data
Package data ensures that the input file (passed as slice map) has no errors in formatting.
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Package data ensures that the input file (passed as slice map) has no errors in formatting. |
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analyze/validate/settings
Package settings validates user analysis settings.
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Package settings validates user analysis settings. |
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convert
Package convert takes a file from ProHits-viz V1 and converts it to V2 JSON.
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Package convert takes a file from ProHits-viz V1 and converts it to V2 JSON. |
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convert/settings
Package settings parsed and/or infers settings for files to convert.
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Package settings parsed and/or infers settings for files to convert. |
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export
Package export creates images in png or svg format.
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Package export creates images in png or svg format. |
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export/dotplot
Package dotplot exports images as a dotplot in svg or png format.
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Package dotplot exports images as a dotplot in svg or png format. |
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export/heatmap
Package heatmap exports images in png or svg format.
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Package heatmap exports images in png or svg format. |
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sync
Package sync will create a minimap from settings.
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Package sync will create a minimap from settings. |
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Package treeview exports a matrix and tree to java treeview format.
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Package treeview exports a matrix and tree to java treeview format. |
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Package types contains type declarations.
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Package types contains type declarations. |
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