Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • problem with extracting special gene sets from kegg gene sets for gage

    Hi bigmw,
    With your help, I have downloaded the whole pathway gene sets for honey bees from Kegg successfully. However, when I tried to extract the signaling/metabolic pathway using the command given by you, it seems that something was wrong with the command, because I just got a file of 78 bytes.

    This is the command I used:
    kegg.gs=kg.ame$kg.sets[kg.ame$sigmet.idx]

    How can I check if kegg.gs is right?


    Thanks a lot!!

    Richard
    Last edited by wmseq; 12-02-2013, 11:03 AM.

  • #2
    I assume you’ve done the following:
    library(gage)
    kg.ame=kegg.gsets("ame")

    then do:
    lapply(kg.ame, head, 3)
    lapply(kg.ame, length)

    And post the output here.

    Comment

    Latest Articles

    Collapse

    • seqadmin
      Exploring the Dynamics of the Tumor Microenvironment
      by seqadmin




      The complexity of cancer is clearly demonstrated in the diverse ecosystem of the tumor microenvironment (TME). The TME is made up of numerous cell types and its development begins with the changes that happen during oncogenesis. “Genomic mutations, copy number changes, epigenetic alterations, and alternative gene expression occur to varying degrees within the affected tumor cells,” explained Andrea O’Hara, Ph.D., Strategic Technical Specialist at Azenta. “As...
      07-08-2024, 03:19 PM
    • 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...
      06-25-2024, 06:43 AM

    ad_right_rmr

    Collapse

    News

    Collapse

    Topics Statistics Last Post
    Started by seqadmin, Today, 11:09 AM
    0 responses
    15 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 07-19-2024, 07:20 AM
    0 responses
    147 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 07-16-2024, 05:49 AM
    0 responses
    121 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 07-15-2024, 06:53 AM
    0 responses
    111 views
    0 likes
    Last Post seqadmin  
    Working...
    X