Parse a FASTQ file into a Tensor

2021-05-06 20:34:39 +02:00 · 2021-05-06 20:34:39 +02:00 · eb072836a1
commit eb072836a1
parent 62fcf0974d
3 changed files with 7 additions and 0 deletions
--- a/src/init.py
+++ b/src/init.py
--- a/src/constants.py
+++ b/src/constants.py
@ -0,0 +1 @@
+ALLOWED_BASES = "ACGT-"
--- a/src/model.py
+++ b/src/model.py
@ -0,0 +1,6 @@
+from tensorflow_io import genome
+
+
+def parse_data(filepath):
+    HVR = genome.read_fastq(filename=filepath)
+    return HVR.sequences, HVR.raw_quality