Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • Improving bacterial genome assembly


    Deall seqanswers community, hope you are all doing well.
    I have sequenced and assembled 8 bacterial genomes of the same species.
    The initial assembly was constructed using paired-end reads from a Miseq and was rather satisfying (to draw first conclusion).
    I also have long reads from PacBio of the same genomes and I would like to take advantage of both type of reads to improve my assembly and portray final conclusions with confidence. I am thinking of a scaffold approach whereby the Pacbio reads will be used to join contig. I would like you to guide me on a way forward.
    I am not comfortable with Unix command line

    Sincerely,

  • #2
    Several tools such as SPAdes support hybrid assembly using illumina and pacbio reads. Their test suggested illumina reads only generated 92 contigs, while illumina+pacbio generated 5 contigs for E coli K12 using SPAdes.

    Comment

    Latest Articles

    Collapse

    • seqadmin
      Recent Advances in Sequencing Analysis Tools
      by seqadmin


      The sequencing world is rapidly changing due to declining costs, enhanced accuracies, and the advent of newer, cutting-edge instruments. Equally important to these developments are improvements in sequencing analysis, a process that converts vast amounts of raw data into a comprehensible and meaningful form. This complex task requires expertise and the right analysis tools. In this article, we highlight the progress and innovation in sequencing analysis by reviewing several of the...
      05-06-2024, 07:48 AM
    • seqadmin
      Essential Discoveries and Tools in Epitranscriptomics
      by seqadmin




      The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...
      04-22-2024, 07:01 AM

    ad_right_rmr

    Collapse

    News

    Collapse

    Topics Statistics Last Post
    Started by seqadmin, Yesterday, 06:35 AM
    0 responses
    15 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 05-09-2024, 02:46 PM
    0 responses
    21 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 05-07-2024, 06:57 AM
    0 responses
    18 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 05-06-2024, 07:17 AM
    0 responses
    19 views
    0 likes
    Last Post seqadmin  
    Working...
    X