feat: Updated 1 files

src/Snps/PythonDependency.php

@@ -20,25 +20,103 @@ public function filter(callable $callback) {
     }
 
     public function merge(DataFrame $other, string $joinType = 'inner', ?string $on = null) {
-        // Implementation of DataFrame merge operation
+        // Implement the logic to merge two DataFrames based on the join type and column(s)
+        // Example implementation:
+        $mergedData = [];
+
+        foreach ($this->data as $row1) {
+            foreach ($other->data as $row2) {
+                if ($on !== null && $row1[$on] === $row2[$on]) {
+                    $mergedRow = array_merge($row1, $row2);
+                    $mergedData[] = $mergedRow;
+                } elseif ($on === null) {
+                    $mergedRow = array_merge($row1, $row2);
+                    $mergedData[] = $mergedRow;
+                }
+            }
+        }
+
+        return new self($mergedData, array_merge($this->columns, $other->columns));
     }
 
     public function select(array $columns) {
-        // Implementation of DataFrame select operation
+        // Implement the logic to select a subset of columns from the DataFrame
+        // Example implementation:
+        $selectedData = [];
+
+        foreach ($this->data as $row) {
+            $selectedRow = [];
+            foreach ($columns as $column) {
+                $selectedRow[$column] = $row[$column];
+            }
+            $selectedData[] = $selectedRow;
+        }
+
+        return new self($selectedData, $columns);
     }
 
     public function dropDuplicates() {
-        // Implementation of DataFrame dropDuplicates operation
+        // Implement the logic to remove duplicate rows from the DataFrame
+        // Example implementation:
+        $uniqueData = [];
+
+        foreach ($this->data as $row) {
+            if (!in_array($row, $uniqueData)) {
+                $uniqueData[] = $row;
+            }
+        }
+
+        return new self($uniqueData, $this->columns);
     }
 }
 
 class SNPAnalysis {
     public function calculateAlleleFrequencies(DataFrame $snps) {
-        // Implementation of allele frequency calculation
+        // Implement the logic to calculate allele frequencies for the given SNPs data
+        // Example implementation:
+        $alleleFrequencies = [];
+
+        foreach ($snps->data as $snp) {
+            $alleles = str_split($snp['genotype']);
+            foreach ($alleles as $allele) {
+                if (!isset($alleleFrequencies[$allele])) {
+                    $alleleFrequencies[$allele] = 0;
+                }
+                $alleleFrequencies[$allele]++;
+            }
+        }
+
+        $totalAlleles = array_sum($alleleFrequencies);
+        foreach ($alleleFrequencies as &$frequency) {
+            $frequency /= $totalAlleles;
+        }
+
+        return $alleleFrequencies;
     }
 
     public function detectSNPBuild(DataFrame $snps) {
-        // Implementation of SNP build detection
+        // Implement the logic to detect the SNP build based on the given SNPs data
+        // Example implementation:
+        $buildCounts = [];
+
+        foreach ($snps->data as $snp) {
+            $build = $snp['build'];
+            if (!isset($buildCounts[$build])) {
+                $buildCounts[$build] = 0;
+            }
+            $buildCounts[$build]++;
+        }
+
+        $maxCount = 0;
+        $detectedBuild = null;
+        foreach ($buildCounts as $build => $count) {
+            if ($count > $maxCount) {
+                $maxCount = $count;
+                $detectedBuild = $build;
+            }
+        }
+
+        return $detectedBuild;
     }
 }