Update human_reference_genome.py

human_reference_genome.py

@@ -50,7 +50,6 @@ _URLS = {
 
 _CHUNK_LENGTHS = [6000, 12000]
 _OVERLAP = 100
-_THRESHOLD_FILTER_N = 0.05
 
 
 def filter_fn(char: str) -> str:
@@ -190,15 +189,11 @@ class HumanReferenceGenome(datasets.GeneratorBasedBuilder):
                             end_pos = min(seq_length, (i+1) * chunk_length + 2 * _OVERLAP)
                             chunk_sequence = sequence[start_pos:end_pos]
 
-                            # compute ratio of Ns
-                            n_ratio = chunk_sequence.count("N") / len(chunk_sequence)
-
-                            # yield chunk only if not too many Ns
-                            if n_ratio < _THRESHOLD_FILTER_N:
-                                yield key, {
-                                    'sequence': chunk_sequence,
-                                    'chromosome': chromosome,
-                                    'start_pos': start_pos,
-                                    'end_pos': end_pos
-                                }
-                                key += 1
+                            # yield chunk
+                            yield key, {
+                                'sequence': chunk_sequence,
+                                'chromosome': chromosome,
+                                'start_pos': start_pos,
+                                'end_pos': end_pos
+                            }
+                            key += 1