Unconfigured Ad

Collapse
X
Collapse
 
  • Page of 1
  • Time
  • Show
Clear All
new posts
Previous template Next
  • mm.perrineau
    Member
    • Sep 2012
    • 12
    #1

    I will be crazy: Help about SNPs and tree!!!!

    Hi,

    Somebody can help me????
    I will be crazy: I am not bioinformaticien and i have to make a phylogenetic tree reflecting the genetic distance between 4 strains...
    I have one strain well sequenced and his genome is annotated...
    I have all reads mapped on this genome for the 3 others strains...

    I used CLC for the SNPs calling and now i am stopped since few weeks and i become crazy!!!!!!!!
    I need to build a simple tree reflecting the genetic distance between those 4 strains...
    Can you help me...

    And i need too some software to make some statistical tests on the SNPs... Do i have some genomic regions ? some genes under selection pressure ?

    Thank you very much !!!!!

    And please help me i am totally desperate !!!!
    Tags: snps, tree
    • khoa128
      Junior Member
      • Sep 2012
      • 2
      #2
      Hi
      you to be used software of this: NextGENe® software for Next Generation (NGS) Sequence Analysis. You may download a 30 day trial from our ftp site:

      ftp://ngval:[email protected]_35Days.EXE

        Comment

        • AdrianP
          Senior Member
          • Apr 2011
          • 130
          #3
          Hello,

          I do not mean to advertise my own thread, but it seems like we are doing something similar. Check out what I have done so far and my obstacles:

          Giant alignment, high identity, which model for phylogeny? - SEQanswers
          http://seqanswers.com/forums/showthread.php?p=112840
          Discussion of next-gen sequencing related bioinformatics: resources, algorithms, open source efforts, etc

            Comment

            Previous template Next

            Latest Articles

            Collapse
            • SEQadmin2
              Multiomic Liquid Biopsy: What DNA/RNA Panels Reveal That DNA Alone Can’t
              by SEQadmin2



              Tumors contain complex mixtures of cell populations that evolve in response to treatment and host-specific factors. Tissue biopsies provide only static snapshots of a tumor’s state. But what if we could follow that evolution over time using a minimally invasive technique?

              Liquid biopsies can detect tumor-derived material circulating in the bloodstream, providing a way to study treatment response, detect emerging resistance, and discover new biomarkers. Circulating              ...
              10-14-2026, 09:55 AM
            • SEQadmin2
              New Genomics Technologies Take Aim at Long-Standing Limits
              by SEQadmin2


              Researchers using sequencing and genomics tools often have to make trade-offs. They can choose between speed or scale, short reads or long-range information, or targeted panels or a view of the whole transcriptome. New technologies that have been released this year are built to address those tough choices.

              We asked six companies the same four questions to learn about their latest products. The new technologies bring a lot to the table, including rethinking sequencing              ...
              09-28-2026, 10:25 AM
            View All

            ad_right_rmr

            Collapse

            News

            Collapse
            Topics Statistics Last Post
            Exeter-Led Study Maps What an Average Human Genome Looks Like by SEQadmin2
            Started by SEQadmin2, 10-22-2026, 11:13 AM
            0 responses
            49 views
            0 reactions
            		 Last Post SEQadmin2
            by SEQadmin2
            10-22-2026, 11:13 AM  
            Long-Read Sequencing Uncovers Cancer Mutations Conventional Testing Missed by SEQadmin2
            Started by SEQadmin2, 10-22-2026, 10:48 AM
            0 responses
            37 views
            0 reactions
            		 Last Post SEQadmin2
            by SEQadmin2
            10-22-2026, 10:48 AM  
            Mayo Clinic-Led Study Detects DNA Mutations Across Noncancerous Tissues by SEQadmin2
            Started by SEQadmin2, 10-15-2026, 10:52 AM
            0 responses
            46 views
            0 reactions
            		 Last Post SEQadmin2
            by SEQadmin2
            10-15-2026, 10:52 AM  
            Study Finds Chromatin Motion Holds Steady Until Cells Face Stress by SEQadmin2
            Started by SEQadmin2, 10-14-2026, 05:39 AM
            0 responses
            46 views
            0 reactions
            		 Last Post SEQadmin2
            by SEQadmin2
            10-14-2026, 05:39 AM  
            View All
            Working...