<p>Fast5 files need to be converted to fastq first prior to mapping. There are currently no tools available to map the entire raw signal directly to a reference, although a few tools are available for identifying short sequences within the raw signal.</p>

CC BY-SA 4.0
2019-11-29T00:37:42.327Z
2019-11-29T00:37:42.327Z
gringer
<p>Is there a best practices for mapping Oxford Nanopore files to a reference?</p>

<p>Is there a tool that can take a tarball of fast5 files and map them directly or do they need to be converted to fastq first?</p>

<read-mapping><nanopore><fast5>
How do you map nanopore fast5 files?
# How do you map nanopore fast5 files?

(Asked by: username_0 on 2019-11-27)

Is there a best practices for mapping Oxford Nanopore files to a reference?

Is there a tool that can take a tarball of fast5 files and map them directly or do they need to be converted to fastq first?

**Tags:** read-mapping, nanopore, fast5

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## 1 answers

### Answer by username_1 on 2019-11-29. Score: 2

Fast5 files need to be converted to fastq first prior to mapping. There are currently no tools available to map the entire raw signal directly to a reference, although a few tools are available for identifying short sequences within the raw signal.


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