Directories
¶
| Path | Synopsis |
|---|---|
|
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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arguments
Package arguments parses and validates command line arguments.
|
Package arguments parses and validates command line arguments. |
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cc
Package cc creates a scatter plot between two conditions.
|
Package cc creates a scatter plot between two conditions. |
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correlation
Package correlation calculates the correlation between conditions and readouts.
|
Package correlation calculates the correlation between conditions and readouts. |
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dotplot
Package dotplot clusters conditions and readouts for visualization as a dotplot.
|
Package dotplot clusters conditions and readouts for visualization as a dotplot. |
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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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dotplot/hierarchical
Package hierarchical clusters data for dot plots.
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Package hierarchical clusters data for dot plots. |
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dotplot/nocluster
Package nocluster generates dot plots based on requested condition and readout ordering.
|
Package nocluster generates dot plots based on requested condition and readout ordering. |
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settings
Package settings logs analysis settings.
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Package settings logs analysis settings. |
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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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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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validate/settings
Package settings validates user analysis settings.
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Package settings validates user analysis settings. |
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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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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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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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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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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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Package sync will create a minimap from settings.
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Package sync will create a minimap from settings. |
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