Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
Collapse
 
  • Page of 1
  • Filter
  • Time
  • Show
Clear All
new posts
Previous template Next
  • #1

    FPKM/RPKM without GFF/GFT file

    Hello all,
    I had been using rseq and seqmap to calculate RPKM values for my transcriptome of interest. One of the benefits of this package is that is does not require a GFF/GTF file. I've moved to bowtie2 for my mapping and am curious if there is software available to calculate RPKM/FPKM without an associated GFF/GTF feature file. I've not been able to find this.
    Thanks.
    Tags: None
  • #2
    re: FPKM/RPKM without GFF/GFT file

    eXpress doesn't require a gtf and works well with Bowtie 1 and 2.

    Comment

    • #3
      Wow...this is great. Thanks for passing it along!

      Comment

      Previous template Next

      Latest Articles

      Collapse
      • seqadmin
        Recent Developments in Metagenomics
        by seqadmin





        Metagenomics has improved the way researchers study microorganisms across diverse environments. Historically, studying microorganisms relied on culturing them in the lab, a method that limits the investigation of many species since most are unculturable1. Metagenomics overcomes these issues by allowing the study of microorganisms regardless of their ability to be cultured or the environments they inhabit. Over time, the field has evolved, especially with the advent...
        09-23-2024, 06:35 AM
      • seqadmin
        Understanding Genetic Influence on Infectious Disease
        by seqadmin




        During the COVID-19 pandemic, scientists observed that while some individuals experienced severe illness when infected with SARS-CoV-2, others were barely affected. These disparities left researchers and clinicians wondering what causes the wide variations in response to viral infections and what role genetics plays.

        Jean-Laurent Casanova, M.D., Ph.D., Professor at Rockefeller University, is a leading expert in this crossover between genetics and infectious...
        09-09-2024, 10:59 AM
      View All

      ad_right_rmr

      Collapse

      News

      Collapse
      Topics Statistics Last Post
      Mechanical Forces in DNA Transcription Uncovered by Clemson Researchers by seqadmin
      Started by seqadmin, 10-02-2024, 04:51 AM
      0 responses
      13 views
      0 likes
      		 Last Post seqadmin
      by seqadmin
      10-02-2024, 04:51 AM  
      New Epigenetic Clock Links Cheek Cells to Mortality Risk by seqadmin
      Started by seqadmin, 10-01-2024, 07:10 AM
      0 responses
      21 views
      0 likes
      		 Last Post seqadmin
      by seqadmin
      10-01-2024, 07:10 AM  
      AI-Powered Blood Test Shows Promise for Early Ovarian Cancer Detection by seqadmin
      Started by seqadmin, 09-30-2024, 08:33 AM
      0 responses
      25 views
      0 likes
      		 Last Post seqadmin
      by seqadmin
      09-30-2024, 08:33 AM  
      Stem Cell Research Suggests Human Cells May Enter Developmental Pause by seqadmin
      Started by seqadmin, 09-26-2024, 12:57 PM
      0 responses
      18 views
      0 likes
      		 Last Post seqadmin
      by seqadmin
      09-26-2024, 12:57 PM  
      View All
      Working...
      X