Unconfigured Ad

Collapse
X
Collapse
 
  • Page of 1
  • Filter
  • Time
  • Show
Clear All
new posts
Previous template Next
  • Avro1986
    Member
    • Dec 2012
    • 10
    #1

    How to index a genome for BLAST

    Hi everyone!

    I have just installed BLAST+ 2.2.27 on my mac. I want to run some cDNAs against arabidopsis thaliana's genome. I know I need to download the genome and format it for BLAST searches but I don't know how.

    I would greatly appreciate any help.

    Thank you very much for your time!
    Tags: None
  • ucpete
    Member
    • Dec 2008
    • 35
    #2
    makeblastdb -in <genome.fasta> -dbtype nucl

    Comment

    • Avro1986
      Member
      • Dec 2012
      • 10
      #3
      Thank you!

      Comment

      Previous template Next

      Latest Articles

      Collapse
      • GATTACAT
        Reply to Nine Things a Sample Prep Scientist Thinks About Before Sequencing
        by GATTACAT
        Love this - good data definitely starts from good input, and poor input can only give relatively poor data. I particularly like the mention of Nanodrop/absorbance based methods for quantification. It's such a toss up if you'll get an accurate reading or what amounts to a randomly generated number, and a lot of library/sequencing related issues can be traced back to poor quant.
        07-01-2026, 11:43 AM
      • SEQadmin2
        Nine Things a Sample Prep Scientist Thinks About Before Sequencing
        by SEQadmin2


        I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.

        Here are nine questions we think about, in roughly the order they matter, before...
        06-18-2026, 07:11 AM
      View All

      ad_right_rmr

      Collapse

      News

      Collapse
      Topics Statistics Last Post
      High-Resolution Sequencing Exposes Hidden Toxoplasma Diversity by SEQadmin2
      Started by SEQadmin2, 07-02-2026, 11:08 AM
      0 responses
      13 views
      0 reactions
      		 Last Post SEQadmin2
      by SEQadmin2
      07-02-2026, 11:08 AM  
      New AI Model Captures Long-Range Genomic Signals to Improve RNA Splice Site Prediction by SEQadmin2
      Started by SEQadmin2, 06-30-2026, 05:37 AM
      0 responses
      15 views
      0 reactions
      		 Last Post SEQadmin2
      by SEQadmin2
      06-30-2026, 05:37 AM  
      Large-Scale Protein Screen Uncovers Hidden Regulators of Alternative Polyadenylation by SEQadmin2
      Started by SEQadmin2, 06-26-2026, 11:10 AM
      0 responses
      20 views
      0 reactions
      		 Last Post SEQadmin2
      by SEQadmin2
      06-26-2026, 11:10 AM  
      Whole-Genome Sequencing Traces Faroe Islands Ancestry to a North Atlantic Founder Population by SEQadmin2
      Started by SEQadmin2, 06-17-2026, 06:09 AM
      0 responses
      54 views
      0 reactions
      		 Last Post SEQadmin2
      by SEQadmin2
      06-17-2026, 06:09 AM  
      View All
      Working...