Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • Reassembling transcriptome using recently published genome

    Hi all,

    I have 454 Roche transcriptome assembly results. It is a single transcriptome. It is assembled "de novo". Much recently a very closely related genome was published. So I want to reassemble with this new genome as "reference". I have 2 folders in the output file given to us by the company, they are 'sff' and "assembly". I cannot find a fastq file. Do I really need fastq file for assembling? I have .qual, .fna &. ace files. Are these files along with "new genome" enough for re-assembly ?

    thank u
    raghul

  • #2
    RReassembling transcriptome using recently published genome

    The sff files should have all the info you need - you can extract the fasta and qual values from the sff file.

    The format to use will depend on the assembler you choose, and what formats it accepts as input.

    Comment

    Latest Articles

    Collapse

    • seqadmin
      Exploring Human Diversity Through Large-Scale Omics
      by seqadmin


      In 2003, researchers from the Human Genome Project (HGP) announced the most comprehensive genome to date1. Although the genome wasn’t fully completed until nearly 20 years later2, numerous large-scale projects, such as the International HapMap Project and 1000 Genomes Project, continued the HGP's work, capturing extensive variation and genomic diversity within humans. Recently, newer initiatives have significantly increased in scale and expanded beyond genomics, offering a more detailed...
      Today, 06:43 AM
    • seqadmin
      Best Practices for Single-Cell Sequencing Analysis
      by seqadmin



      While isolating and preparing single cells for sequencing was historically the bottleneck, recent technological advancements have shifted the challenge to data analysis. This highlights the rapidly evolving nature of single-cell sequencing. The inherent complexity of single-cell analysis has intensified with the surge in data volume and the incorporation of diverse and more complex datasets. This article explores the challenges in analysis, examines common pitfalls, offers...
      06-06-2024, 07:15 AM

    ad_right_rmr

    Collapse

    News

    Collapse

    Topics Statistics Last Post
    Started by seqadmin, 06-21-2024, 07:49 AM
    0 responses
    200 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 06-20-2024, 07:23 AM
    0 responses
    203 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 06-17-2024, 06:54 AM
    0 responses
    210 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 06-14-2024, 07:24 AM
    0 responses
    28 views
    0 likes
    Last Post seqadmin  
    Working...
    X