Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • Help with Blast and nr database

    Hello.

    I have a list of contigs that I would like them Blast on my computer (BioLinux 6), my question is how to use the nr database (preformatted, nr.00.tar.gz ... nr.06.tar.gz) I decompressed tar xzvf files, creating files with extension. phd. phi. phr. pin. pnd. pni. pog. ppi. psd. psi. psq But not to do with them, I found the following with formatdb:

    "Please note that formatdb does not create non-redundant blast databases"

    That means you can run blastall as are the files or format it with another program and not formatdb?

    Thanks

  • #2
    Are you interested in blasting your contigs against the preformatted "nr" database?

    If that is correct then have a look at this link: http://www.ncbi.nlm.nih.gov/books/NBK1763/

    Comment

    Latest Articles

    Collapse

    • seqadmin
      Current Approaches to Protein Sequencing
      by seqadmin


      Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...
      04-04-2024, 04:25 PM
    • 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

    ad_right_rmr

    Collapse

    News

    Collapse

    Topics Statistics Last Post
    Started by seqadmin, 04-11-2024, 12:08 PM
    0 responses
    24 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 04-10-2024, 10:19 PM
    0 responses
    25 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 04-10-2024, 09:21 AM
    0 responses
    21 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 04-04-2024, 09:00 AM
    0 responses
    52 views
    0 likes
    Last Post seqadmin  
    Working...
    X