[maker-devel] Changing the genetic code table in MAKER

[Carson Holt]

Sorry. MAKER does not currently support alternate codon tables.

—Carson


> On Nov 30, 2017, at 11:20 PM, Yu-Hsuan Cheng <aircoolsky at gmail.com> wrote:
> 
> Hi,
> 
> This is YuHsuan Cheng, who is a PhD student from Taiwan. I want to use the MAKER combining with SNAP to annotate ciliates genome. The genetic code for ciliates is different from other species, so I am wondering that if there is any option in MAKER I can change the genetic code table? I also asked Dr. Korf about this issue, he said SNAP has no way to change the genetic code table. I will use Augustus combining with Maker later on. 
> The pipeline I used previously is as followed.
> 
> 1. MAKER (Hints from proteome and RNAseq)
> 2. MAKER to Zff  
> 3. ~/bin/maker/exe/snap/hmm-assembler.pl <http://hmm-assembler.pl/> snapFirst . > ../../snapFirst.hmm
> and then used snapFirst.hmm as hints in MAKER
> 
> Look forward to your reply. Thank you.
> 
> Best wishes,
> 
> YuHsuan 
> 
> Yu-Hsuan Cheng 鄭毓鋗
> Institute of Molecular Biology
> Academia Sinica
> 128 Academia road, Section 2
> Nankang, Taipei 115
> Taiwan
> Phone:+886-2-2789-9216 <tel:+886%202%202789%209216> (Lab), +886-958-216-538 <tel:+886%20958%20216%20538> (Mobile phone)
> d02b48008 at ntu.edu.tw <mailto:d02b48008 at ntu.edu.tw>_______________________________________________
> maker-devel mailing list
> maker-devel at box290.bluehost.com
> http://box290.bluehost.com/mailman/listinfo/maker-devel_yandell-lab.org

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://yandell-lab.org/pipermail/maker-devel_yandell-lab.org/attachments/20171201/20ea0d97/attachment-0003.html>