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Make weight column selectable in case of cooler show --balanced #472

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Make weight column selectable in case of cooler show --balanced #472

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a06d898
add selectable weights
Aug 5, 2025
60aafa2
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Aug 5, 2025
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12 changes: 9 additions & 3 deletions src/cooler/cli/show.py
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Original file line number Diff line number Diff line change
Expand Up @@ -17,7 +17,10 @@ def get_matrix_size(c, row_region, col_region):
return ncols * nrows


def load_matrix(c, row_region, col_region, field, balanced, scale):
def load_matrix(c, row_region, col_region, field, balanced, scale, weights):
if balanced and weights != 'weight':
balanced = weights

mat = c.matrix(balance=balanced, field=field).fetch(row_region, col_region)

if scale == "log2":
Expand Down Expand Up @@ -177,8 +180,11 @@ def update_heatmap(event):
@click.option(
"--field", default="count", show_default=True, help="Pixel values to display."
)
@click.option(
"--weights", default="weight", show_default=True, help="weight column to use when --balanced = True"
)
def show(
cool_uri, range, range2, balanced, out, dpi, scale, force, zmin, zmax, cmap, field
cool_uri, range, range2, balanced, out, dpi, scale, force, zmin, zmax, cmap, field, weights
):
"""
Display and browse a cooler in matplotlib.
Expand Down Expand Up @@ -222,7 +228,7 @@ def show(
plt.get_current_fig_manager().set_window_title("Contact matrix")
plt.title("")
plt.imshow(
load_matrix(c, row_region, col_region, field, balanced, scale),
load_matrix(c, row_region, col_region, field, balanced, scale, weights),
interpolation="none",
extent=[col_lo, col_hi, row_hi, row_lo],
vmin=zmin,
Expand Down
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