tfio.genome.phred_sequences_to_probability
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Converts raw phred quality scores into base-calling error probabilities.
@tf.function
tfio.genome.phred_sequences_to_probability(
phred_qualities
)
Used in the notebooks
For each ASCII encoded phred quality score (X), the probability that there
was an error calling that base is computed by:
P = 10 ^ (-(X - 33) / 10)
This is assuming an "ASCII base" of 33.
The input is a tf.string tensor of ASCII encoded phred qualities,
one string per DNA sequence, with each character representing the quality
of a nucelotide.
For example:
phred_qualities = [["BB<"], ["BBBB"]]
Args |
|---|
phred_qualities
|
A tf.string tensor where each string represents the phred
quality of a DNA sequence. Each character in the string
is the ASCII representation of the phred quality number.
|
Returns |
|---|
tf.RaggedTensor
|
The quality scores for each base in each sequence provided.
|
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Last updated 2022-02-15 UTC.
[null,null,["Last updated 2022-02-15 UTC."],[],[],null,["# tfio.genome.phred_sequences_to_probability\n\n\u003cbr /\u003e\n\n|-------------------------------------------------------------------------------------------------------------------------|\n| [View source on GitHub](https://github.com/tensorflow/io/blob/v0.24.0/tensorflow_io/python/ops/genome_ops.py#L114-L142) |\n\nConverts raw phred quality scores into base-calling error probabilities. \n\n @tf.function\n tfio.genome.phred_sequences_to_probability(\n phred_qualities\n )\n\n### Used in the notebooks\n\n| Used in the tutorials |\n|------------------------------------------------------|\n| - [](https://www.tensorflow.org/io/tutorials/genome) |\n\nFor each ASCII encoded phred quality score (X), the probability that there\nwas an error calling that base is computed by:\n\nP = 10 \\^ (-(X - 33) / 10)\n\nThis is assuming an \"ASCII base\" of 33.\n\nThe input is a tf.string tensor of ASCII encoded phred qualities,\none string per DNA sequence, with each character representing the quality\nof a nucelotide.\n\n#### For example:\n\nphred_qualities = \\[\\[\"BB\\\u003c\"\\], \\[\"BBBB\"\\]\\]\n\n\u003cbr /\u003e\n\n\u003cbr /\u003e\n\n\u003cbr /\u003e\n\n| Args ---- ||\n|-------------------|----------------------------------------------------------------------------------------------------------------------------------------------------------------------------|\n| `phred_qualities` | A tf.string tensor where each string represents the phred quality of a DNA sequence. Each character in the string is the ASCII representation of the phred quality number. |\n\n\u003cbr /\u003e\n\n\u003cbr /\u003e\n\n\u003cbr /\u003e\n\n\u003cbr /\u003e\n\n| Returns ------- ||\n|---------------------------------------------------------------------------------|-------------------------------------------------------------|\n| [`tf.RaggedTensor`](https://www.tensorflow.org/api_docs/python/tf/RaggedTensor) | The quality scores for each base in each sequence provided. |\n\n\u003cbr /\u003e"]]
View source on GitHub