Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • annotation merge

    Hi,

    I would like to compare the annotation of a bacterial draft genome made by two different pipelines (PGAAP and RAST).

    Any ideas how to do that?

    Is it possible to "merge" the annotations into a single file? Say, a genbank file?

    Thanks

  • #2
    Check out maker2 for merging them. Comparing them would be Eval.

    Comment


    • #3
      Do these tools work with prokaryote genomes?

      Actually, I would like to compare gene by gene annotation from each source and not only to compare overall quality.

      While PGAAP output comes ready for submission for NCBI, the RAST output assigns genes into subsystems. That's why I would like to work with both outputs, but it would be nice to "join" the whole information together and also to correct errors that might exist in one or the other.

      Comment


      • #4
        Maker2 does work with prokaryote genomes.

        And for gene by gene annotation comparison I don't know of anything and that sounds like a very difficult task. I think the best way would really be to just visualize them in a genome viewer.

        Comment

        Latest Articles

        Collapse

        • seqadmin
          Strategies for Sequencing Challenging Samples
          by seqadmin


          Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...
          03-22-2024, 06:39 AM
        • seqadmin
          Techniques and Challenges in Conservation Genomics
          by seqadmin



          The field of conservation genomics centers on applying genomics technologies in support of conservation efforts and the preservation of biodiversity. This article features interviews with two researchers who showcase their innovative work and highlight the current state and future of conservation genomics.

          Avian Conservation
          Matthew DeSaix, a recent doctoral graduate from Kristen Ruegg’s lab at The University of Colorado, shared that most of his research...
          03-08-2024, 10:41 AM

        ad_right_rmr

        Collapse

        News

        Collapse

        Topics Statistics Last Post
        Started by seqadmin, Yesterday, 06:37 PM
        0 responses
        8 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, Yesterday, 06:07 PM
        0 responses
        8 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 03-22-2024, 10:03 AM
        0 responses
        49 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 03-21-2024, 07:32 AM
        0 responses
        66 views
        0 likes
        Last Post seqadmin  
        Working...
        X