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fix: Lint erros
1 parent 8983418 commit 7cb10e8

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Lines changed: 3 additions & 3 deletions

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malariagen_data/anoph/hapclust.py

Lines changed: 3 additions & 3 deletions
Original file line numberDiff line numberDiff line change
@@ -799,7 +799,7 @@ def _compute_haplotype_sharing(
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2. Assigning two cohort labels per diploid sample (one for each haplotype).
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3. Filtering down to segregating sites to speed up distinction.
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4. Grouping all identical haplotypes together using `ht.distinct()`.
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5. Counting the number of shared identical groups between every pair of cohorts and returning sharing matrix.
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5. Counting the number of shared identical groups between every pair of cohorts and returning sharing matrix.
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"""
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# Load phased genotypes for the specified region
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ds_haps = self.haplotypes(
@@ -933,7 +933,7 @@ def plot_haplotype_sharing_arc(
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arc_height = abs(x2 - x1) * 0.5
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# Scale arc thickness linearly based on sharing count
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line_width = 1 + (count / max_sharing) * 9
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# Generate points for the arc
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# Generate points for the arc
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t = np.linspace(0, np.pi, 50)
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arc_x = x1 + (x2 - x1) * (1 - np.cos(t)) / 2
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arc_y = arc_height * np.sin(t)
@@ -1069,7 +1069,7 @@ def plot_haplotype_sharing_chord(
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x2, y2 = cohort_x[c2], cohort_y[c2]
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line_width = 1 + (count / max_sharing) * 9
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# Draw a quadratic Bezier curve passing through the center (0,0)
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# Draw a quadratic Bezier curve passing through the center (0,0)
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# t from 0 to 1 traces the curve from cohort 1 to cohort 2
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t = np.linspace(0, 1, 50)
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cx, cy = 0, 0

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