Unconfigured Ad

Collapse
X
Collapse
 
  • Page of 1
  • Filter
  • Time
  • Show
Clear All
new posts
Previous template Next
  • TonyK
    Junior Member
    • Jul 2014
    • 1
    #1

    Velvet Assembly Fail

    Hi everyone,

    I just attempted my first de-novo assembly of my ddRAD sequences in Velvet, and got some weird results. I'm using ddRADseq for SNP discovery (and QTL and linkage mapping) in a 1.2 Gb genome, so I'm expecting to assemble many smallish contigs that are similar in size to my library inserts. After running Velvet with k =31, I received 9 contigs of around 75 bp, using only 100,000 or so of 20,000,000 reads.

    Anyone have any idea what's going on?
    Tags: None
Previous template Next

Latest Articles

Collapse
  • 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
  • SEQadmin2
    From Collection to Sequencing: Why Sample Preparation and Preservation Define Sequencing Data
    by SEQadmin2


    Data variability is still an issue in sequencing technologies despite the advances in reproducibility and accuracy of these platforms. But the problem does not originate in the sequencing itself, but in the previous steps, before the sample reaches the sequencer.

    The first step is collection, followed by preservation and sample preparation for analysis. Most scientists overlook those steps, but not being careful might just be skewing the experiment’s results.
    ...
    06-02-2026, 10:05 AM
View All

ad_right_rmr

Collapse

News

Collapse
Topics Statistics Last Post
Large-Scale Protein Screen Uncovers Hidden Regulators of Alternative Polyadenylation by SEQadmin2
Started by SEQadmin2, 06-26-2026, 11:10 AM
0 responses
12 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
48 views
0 reactions
 Last Post SEQadmin2
by SEQadmin2
06-17-2026, 06:09 AM  
Sequencing the Two-Toed Sloth Genome Reveals Jumping Genes Tied to Its Extreme Metabolism by SEQadmin2
Started by SEQadmin2, 06-09-2026, 11:58 AM
0 responses
107 views
0 reactions
 Last Post SEQadmin2
by SEQadmin2
06-09-2026, 11:58 AM  
A New Method Makes Hantavirus Genome Analysis Faster and More Accessible by SEQadmin2
Started by SEQadmin2, 06-05-2026, 10:09 AM
0 responses
125 views
0 reactions
 Last Post SEQadmin2
by SEQadmin2
06-05-2026, 10:09 AM  
View All
Working...