Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • amitbik
    replied
    Hi There,
    I am having error while converting genebank file to gff format.
    I am using genbank2gff.pl perl script but i am getting following error

    ------------- EXCEPTION -------------
    MSG: type_map values must be scalar or CODE ref. You said: ARRAY(0x19c5050) for type: tRNA
    STACK Bio::SeqFeature::Tools::TypeMapper::map_types /usr/local/share/perl/5.14.2/Bio/SeqFeature/Tools/TypeMapper.pm:194
    STACK main::unflatten_seq genbank2gff.pl:891
    STACK toplevel genbank2gff.pl:395

    Can any body help me to find out the error..?

    Thanks in advance..

    Leave a comment:


  • ThePresident
    replied
    I used the first one and wow... It seemed to work perfectly in a fraction of a second! I'll try to use it in HTseq-count, but I think it should work.

    Thanks a lot!!! I screened the web but missed this one!

    Leave a comment:


  • mastal
    replied
    Have a look at the following links:

    This program takes a sequence or sequences (alignment) as input in an unspecified format and converts the sequence(s) to a different user-specified format






    I have not used any of the scripts, though.

    Leave a comment:


  • ThePresident
    started a topic From GeneBank to .GFF

    From GeneBank to .GFF

    Hello everyone,

    I'm working with an organism that doesn't have a proper .gff annotated file available on NCBI. However, I can have a full GeneBank file. Does anyone know how to "convert" or extract the information in order to create .gff from GeneBank? My organism has about 52 genes (a virus), so I guess I could almost do it manually, but still...

    I have no true skills in programming, so... Any "easy" way of doing it?

    TP

Latest Articles

Collapse

  • seqadmin
    Latest Developments in Precision Medicine
    by seqadmin



    Technological advances have led to drastic improvements in the field of precision medicine, enabling more personalized approaches to treatment. This article explores four leading groups that are overcoming many of the challenges of genomic profiling and precision medicine through their innovative platforms and technologies.

    Somatic Genomics
    “We have such a tremendous amount of genetic diversity that exists within each of us, and not just between us as individuals,”...
    05-24-2024, 01:16 PM
  • seqadmin
    Recent Advances in Sequencing Analysis Tools
    by seqadmin


    The sequencing world is rapidly changing due to declining costs, enhanced accuracies, and the advent of newer, cutting-edge instruments. Equally important to these developments are improvements in sequencing analysis, a process that converts vast amounts of raw data into a comprehensible and meaningful form. This complex task requires expertise and the right analysis tools. In this article, we highlight the progress and innovation in sequencing analysis by reviewing several of the...
    05-06-2024, 07:48 AM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, 05-24-2024, 07:15 AM
0 responses
15 views
0 likes
Last Post seqadmin  
Started by seqadmin, 05-23-2024, 10:28 AM
0 responses
17 views
0 likes
Last Post seqadmin  
Started by seqadmin, 05-23-2024, 07:35 AM
0 responses
21 views
0 likes
Last Post seqadmin  
Started by seqadmin, 05-22-2024, 02:06 PM
0 responses
10 views
0 likes
Last Post seqadmin  
Working...
X