Square heatmaps#

CLI mode#

conf-hicmap_5.yml

trackc:
  - ax: t1
    height: 3
    track_type: hicmap
    track_para:
      mat:
        method: extractCisContact
        clr: ./github/seqyuan/trackc_data/examples/HPDE6C7.chr18.mcool::/resolutions/25000
      mapC:
        map_type: squ
        label: upper
  - ax: t2
    height: 3
    hspace: 0.1
    track_type: hicmap
    track_para:
      mat2:
        method: extractCisContact
        clr: ./github/seqyuan/trackc_data/examples/BxPC3.chr18.mcool::/resolutions/25000
      mapC:
        map_type: squ
        label: lower
  - ax: t3
    height: 3
    hspace: 0.1
    track_type: hicmap
    track_para:
      mat:
        method: extractCisContact
        clr: ./github/seqyuan/trackc_data/examples/BxPC3.chr18.mcool::/resolutions/25000
      mapC:
        map_type: squ
        symmetric: True

  - ax: t4
    height: 3
    hspace: 0.1
    track_type: hicmap
    track_para:
      mat:
        method: extractCisContact
        clr: ./github/seqyuan/trackc_data/examples/HPDE6C7.chr18.mcool::/resolutions/25000
      mat2:
        method: extractCisContact
        clr: ./github/seqyuan/trackc_data/examples/BxPC3.chr18.mcool::/resolutions/25000
      mapC:
        cmap:
          - PuBu
          - Purples
        map_type: squ
        label:
          - Normal
          - Tumor

trackc cli conf-hicmap_1.yml -s 3,1 -r 18:64000000-71000000

API mode#

[10]:

import trackc as tc

ten = tc.tenon(figsize=(4, 1))
ten.add(pos="bottom", height=4)

region = "18:64000000-71000000"
clr1 = "./github/seqyuan/trackc_data/examples/HPDE6C7.chr18.mcool::/resolutions/25000"
clr2 = "./github/seqyuan/trackc_data/examples/BxPC3.chr18.mcool::/resolutions/25000"

mat = tc.tl.extractCisContact(clr=clr1, region=region)
mat2 = tc.tl.extractCisContact(clr=clr2, region=region)

tc.pl.mapC(
    ax=ten.axs(0),
    mat=mat,
    mat2=mat2,
    cmap=[tc.pa.cmaps.fruitpunch, "PuBu"],
    map_type="squ",
    label=["Normal", "Tumor"],
)

no max min range
maxrange: 160.0 minrange: 1.0
no max min range
maxrange: 174.0 minrange: 1.0