API

Import trackc as:

import trackc as tc

Tool

tl.GenomeRegion
tl.RegionsCmat
tl.extractContactRegions	Extract a set of regions matrix from the cool format Hi-C matrix.
tl.extractCisContact	Extract cis contact matrix from the cool or mcool format Hi-C matrix.

GrigSpec

trackc.make_spec	Make GridSpec allows complex layout of Axes in the figure.
trackc.tenon	Make a virtual-figure, based on virtual-figure, users can add Axes to the top or bottom of the total layout.

Plotting

pl.scale_track	Plot one region scale bar track
pl.multi_scale_track	Plot region scale bar, support for multiple or reverse genome regions.
pl.bed_track	Plot bed track, support for multiple or reverse genome regions.
pl.bdgmat_track	Plot bedGraph matrix track, support for multiple or reverse genome regions.
pl.bw_track	Plot bigwig signal track, support for multiple or reverse genome regions.
pl.virtual4C	Plot virtual4C track, support for multiple or reverse genome regions.
pl.links_track	Plot loop arc, support for multiple or reverse genome regions.
pl.zoomin	Plot zoomin track, support for multiple or reverse genome regions.
pl.mapc_markline	The mapc_markline function used for mark contact regions on the heatmap, It should be used in conjunction with mapc.
pl.gene_track	Plot gene track, support for multiple or reverse genome regions.
pl.mapC	Plot contact map, support for multiple or reverse genome regions.
pl.vhighlight	Plot vhighlight track, support for multiple or reverse genome regions.

SaveFig

trackc.savefig

Save the figure.

Palettes

pa.fruitpunch	Colormap objects based on lookup tables using linear segments.
pa.fruitpunch2	Colormap objects based on lookup tables using linear segments.
pa.colorC
pa.trackcl_9	Built-in mutable sequence.
pa.trackcl_11	Built-in mutable sequence.
pa.vega_10_trackc	Built-in mutable sequence.
pa.default_20	Built-in mutable sequence.
pa.zeileis_28	Built-in mutable sequence.
pa.default_102	Built-in mutable sequence.