Answers.Body: <p>The steps needed to assemble a genome in Galaxy are layed out in the <a href="http://galaxyproject.github.io/training-material/topics/assembly/" rel="nofollow noreferrer">Assembly training material</a> from the Galaxy Training network. The software for this should be available on the main galaxy servers (e.g., usegalaxy.eu). Since you have a prokaryote, I suggest you follow the "Unicycler Assembly" workflow, which is also available on <a href="https://usegalaxy.eu/" rel="nofollow noreferrer">usegalaxy.eu</a>.</p>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2018-08-14T08:16:13.880Z
Answers.LastActivityDate: 2018-08-14T08:16:13.880Z
Answers.UserDisplayName: Devon Ryan
Answers.Body: <p>I think the reason for your confusion is vocabulary.</p>
  
  <p>The keywords you search for are genome assembly (see @Devon Ryan's answer) a process that is trying to stick together reads to recreate the sequenced genomic sequence. The assembled sequence needs to be annotated if you are interested where are the genes or what they could possibly do. If you will search for tutorials using these keywords you will find plenty.</p>
  
  <p>I am not sure why you need it, but <a href="https://www.ncbi.nlm.nih.gov/Sitemap/samplerecord.html" rel="nofollow noreferrer">Genbank format</a> contains the genome (the product of genome assembly), metadata (who is the submitter, what species it is, etc) and genome annotation (what is in the region of genome).</p>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2018-10-13T11:57:33.620Z
Answers.LastActivityDate: 2018-10-13T11:57:33.620Z
Answers.UserDisplayName: Kamil S Jaron
Body: <p>I've unmapped cleaned paired end sequence data in fastq format of a bacterial genome. I want to get a sequence data in Genbank format in the end. What are the exact steps that I have to follow in galaxy webserver and if in some point necessary, also using linux based apps? I would appreciate a lot of details.</p>
  
Tags: <sequence-annotation><genome>
Title: How to generate Genbank format out of paired end fastq data?
ThreadText: # How to generate Genbank format out of paired end fastq data?
  
  (Asked by: username_0 on 2018-08-09)
  
  I've unmapped cleaned paired end sequence data in fastq format of a bacterial genome. I want to get a sequence data in Genbank format in the end. What are the exact steps that I have to follow in galaxy webserver and if in some point necessary, also using linux based apps? I would appreciate a lot of details.
  
  **Tags:** sequence-annotation, genome
  
  
  ---
  
  ## 2 answers
  
  ### Answer by username_1 on 2018-08-14. Score: 1
  
  The steps needed to assemble a genome in Galaxy are layed out in the [Assembly training material](http://galaxyproject.github.io/training-material/topics/assembly/) from the Galaxy Training network. The software for this should be available on the main galaxy servers (e.g., usegalaxy.eu). Since you have a prokaryote, I suggest you follow the "Unicycler Assembly" workflow, which is also available on [usegalaxy.eu](https://usegalaxy.eu/).
  
  
  ---
  
  ### Answer by username_2 on 2018-10-13. Score: 0
  
  I think the reason for your confusion is vocabulary.
  
  The keywords you search for are genome assembly (see @username_1's answer) a process that is trying to stick together reads to recreate the sequenced genomic sequence. The assembled sequence needs to be annotated if you are interested where are the genes or what they could possibly do. If you will search for tutorials using these keywords you will find plenty.
  
  I am not sure why you need it, but [Genbank format](https://www.ncbi.nlm.nih.gov/Sitemap/samplerecord.html) contains the genome (the product of genome assembly), metadata (who is the submitter, what species it is, etc) and genome annotation (what is in the region of genome).
  
  
  ---
  
  