Develop #36
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Develop #36
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* started bug fixing in parsetable * debugging and improving the computeOrderedMatrix changes are included changes in formating, adding the groupUsingSample argument as an optional argument with default = all, adding -a and -b arguments for the region to plot before and after the region of interest and adding the possibilty to plot the intermediate matrix (this might need further improvment) * removed unnecessary comments
* added group for arg parse * fixed the situation when plotheatmap is called but the intermedate matrix is not commit message for your changes. Lines starting
* added group for arg parse * fixed the situation when plotheatmap is called but the intermedate matrix is not commit message for your changes. Lines starting * updated the readme and the requirements.yaml files * small update on readme
* added group for arg parse * fixed the situation when plotheatmap is called but the intermedate matrix is not commit message for your changes. Lines starting * updated the readme and the requirements.yaml files * small update on readme * updating readme format
* Started writing the README. Installation section * Commented unrevised chunks * changed readme * fixed preClusterMode * removed some prints * changed the config file. Now two entries are needed for the matrix parameters * fixed the clusterign issue * added the number of processors as an optional arugment * removed bedtools test file * Updated some function definitions (tested) * Minor fix * Updated documentation * Updated program name in doc * merged develop and solved conflicts * fixed readme conflict * updated the usage in readme * added help to readme * updated the help message * updated readme * updated readme * update readme * more update on documentation
… parseTables, updated readme, changed the version number, added extra argumnets to save the closest genes bed file, set the default referencePoint for finding the closest gene to None
* updated readme, added an image * changed the image's extension * added the png image * removed the pdf image * changed the place of the image in readme * added caption for the image * center image * removed the other image. resized the center image * fixed the image caption * more on caption * firxed partitions * typo
* updated readme, added an image * changed the image's extension * added the png image * removed the pdf image * changed the place of the image in readme * added caption for the image * center image * removed the other image. resized the center image * fixed the image caption * more on caption * firxed partitions * typo * corrected readme text
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