Body: <p>I am trying to use a free .py script from this site </p>
  
  <pre><code>  http://www.di-tector.cyame.eu/
  </code></pre>
  
  <p>while unfortunately there's neither manual nor any documentation presented.</p>
  
  <p>I have downloaded the .py script however I have absolutely no idea how it can be started. Can anyone give me an idea of how that can be done?</p>
  
  <p>The corresponding article (<a href="https://pubmed.ncbi.nlm.nih.gov/30012569/" rel="nofollow noreferrer">https://pubmed.ncbi.nlm.nih.gov/30012569/</a>) only displays parameters for executing it and there is no way to understand what steps must be performed firstly. Thank you.</p>
  
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-06-13T16:37:38.353Z
Comments.Text: agree, while unfortunately, this is the only tool that I have found yet, that is dedicated to defective genomes analysis.
Comments.UserDisplayName: Dmitrii Trubetskoy
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-06-13T19:36:34.350Z
Comments.Text: true, it says I have to do it this way: ```usage: DI-tector_06.py [-h] [-g HOST_REF] [-s MIN_SEGMENT] [-m MIN_MAPQ] [-n NB_READS] [-o OUTPUT_DIRECTORY] [-t TAG] [-d] [-l INDEL_LENGTH] [-f] [-p POLARITY] [-q] [-k] [-x NB_THREADS] Virus_Ref Input_Data``` Just cannot figure out what are ```Virus_Ref Input_Data``` might be just a .fastq and .gtf files?
Comments.UserDisplayName: Dmitrii Trubetskoy
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-06-14T19:54:18.320Z
Comments.Text: Regardless it is a stylish (and fashionable) question
Comments.UserDisplayName: M__
Tags: <python><genome>
Title: How to use the DI-tector software for defective genomes analysis?
ThreadText: # How to use the DI-tector software for defective genomes analysis?
  
  (Asked by: username_0 on 2020-06-13)
  
  I am trying to use a free .py script from this site
  
  ```
    http://www.di-tector.cyame.eu/
  
  ```
  
  while unfortunately there's neither manual nor any documentation presented.
  
  I have downloaded the .py script however I have absolutely no idea how it can be started. Can anyone give me an idea of how that can be done?
  
  The corresponding article (<https://pubmed.ncbi.nlm.nih.gov/30012569/>) only displays parameters for executing it and there is no way to understand what steps must be performed firstly. Thank you.
  
  **Tags:** python, genome
  
  > **Comments:**
  > **username_0**: agree, while unfortunately, this is the only tool that I have found yet, that is dedicated to defective genomes analysis.  
  > **username_0**: true, it says I have to do it this way: ```usage: DI-tector_06.py [-h] [-g HOST_REF] [-s MIN_SEGMENT] [-m MIN_MAPQ] [-n NB_READS] [-o OUTPUT_DIRECTORY] [-t TAG] [-d] [-l INDEL_LENGTH] [-f] [-p POLARITY] [-q] [-k] [-x NB_THREADS] Virus_Ref Input_Data``` Just cannot figure out what are ```Virus_Ref Input_Data``` might be just a .fastq and .gtf files?  
  > **username_1**: Regardless it is a stylish (and fashionable) question  
  
  ---
  
  ## 0 answers
  
  