Gene Plots

Updates from the last release:

A new feature to plot genes in UCSC genome browser format within the visualized area.

parameters:

-g (--plotGenes): a sorted bed file with gene names should be provided.
-gl (--geneLabels): a boolean to make gene names visible (default) or not.

new parameters:

-ce (--compareEx): comma separated two absolute values (such as for -4 to 6: 4,6).
-p (--pair): for plotting all pair-wise matrix comparisons.
-dpi (--dPixels): to determine dots per inch for the output file, higher values for higher resolution (default:200).

Version 0.6.02.comparison

Updates from the last release:

New track type: Bar plots for plotting useful especially for discrete values.

New parameters:

-dc for assigning custom colors to the domain plots
-ext for determining output file format
-spi for removing top and left borders for each tracks
-c for plotting log2 comparison of first two data matrices. Will plot only one comparison even if more than two matrices are supplied. Underdevelopment at the moment, please email me for any issues/suggestions.

HiCplotter version 0.5.1

Epilogos plotting:
HiCPlotter can now visualize Hi-C data with Epilogos
(http://compbio.mit.edu/epilogos/#) from Kellis lab. Please check the
manual for the parameters.

Whole genome plotting with triple sparse file format is fixed. Please
use -wg parameter with -chr, (-chrY for whole genome interactions,
otherwise enter a particular chromosome name until which interactions
profiles will be plotted). Please check the ReadMe page for examples.

A new parameter (-hc) is introduced to color the area under histograms.
Same as -tc/-ac please provide a hexadecimal number.

Beta0.3.26

ReadMe

Beta0.3.25

Update

Beta0.3.24

examplePlots