search

chasewnelson / SNPGenie

Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
GNU General Public License v3.0
109 stars 37 forks source link

problems with gtf file #76

Closed chantisakee closed 1 month ago

chantisakee commented 1 month ago

Hi,

Thank you for your interesting and helpful tool! I would like to work with rickettsia genome so i got the gtf file from NCBI. and i got tons of issue like this--

WARNING: The CDS coordinates for gene RT_RS04555 in the gtf file do not yield a set of complete codons,

or are absent from the file. The number of nucleotides must be a multiple of 3.

SNPGenie terminated.

when i've fixed one then the other one comes up. Just wondering what do i have to do with the gtf file.. can i use it directly from the souce?

Thank you

chantisakee commented 1 month ago

the issue is solved now.

singing-scientist commented 1 month ago

@chantisakee glad to hear it! Let me know if anything else comes up.

Sincerely, Chase