Answers.Body: <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>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2019-11-29T00:37:42.327Z
Answers.LastActivityDate: 2019-11-29T00:37:42.327Z
Answers.UserDisplayName: gringer
Body: <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>
  
Tags: <read-mapping><nanopore><fast5>
Title: How do you map nanopore fast5 files?
ThreadText: # 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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