Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • how to create mat file for genemark

    I have genemarks.pl, makemat, viewamt, gmhmm in my path.
    After running, genemarkS, I get .mod and .mat file for model and matrix of that genome respectively.

    I can use these file for genemark and genemark.hmm for further gene prediction.
    But if I do not want to use genemarkS, how do I get the .mod & .mat correctly?

    I went through read me file and says to use probuild and mkmat
    mkmat [-x] <coding file> <noncoding file> <order> <output file>
    I do not have coding and noncoding file of the genome.

    ~/bin/genemark/gmsuite/probuild par -par_1.default -mkmod mod nz.fna
    where nz.fna is fasta file of genome
    mod is the model output name.

    I have par_1.deault in my folder where genome file is present, when I try to run the above command, I get error as:

    error in command line
    Bioinformaticscally calm

Latest Articles

Collapse

  • seqadmin
    Strategies for Sequencing Challenging Samples
    by seqadmin


    Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...
    03-22-2024, 06:39 AM
  • seqadmin
    Techniques and Challenges in Conservation Genomics
    by seqadmin



    The field of conservation genomics centers on applying genomics technologies in support of conservation efforts and the preservation of biodiversity. This article features interviews with two researchers who showcase their innovative work and highlight the current state and future of conservation genomics.

    Avian Conservation
    Matthew DeSaix, a recent doctoral graduate from Kristen Ruegg’s lab at The University of Colorado, shared that most of his research...
    03-08-2024, 10:41 AM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, Yesterday, 06:37 PM
0 responses
12 views
0 likes
Last Post seqadmin  
Started by seqadmin, Yesterday, 06:07 PM
0 responses
10 views
0 likes
Last Post seqadmin  
Started by seqadmin, 03-22-2024, 10:03 AM
0 responses
51 views
0 likes
Last Post seqadmin  
Started by seqadmin, 03-21-2024, 07:32 AM
0 responses
68 views
0 likes
Last Post seqadmin  
Working...
X