Linux GUI app to codon optimize many single-fasta files with coding sequences , using many taxonomy ids

Last update: Jan 23, 2022

Overview

codon_optimize_cds_with_many_taxids_singlefasta

Linux GUI app to codon optimize many single-fasta files with coding sequences, using many taxonomy ids

Depedences

linux OS (tested on ubuntu 20.04 LTS)
python 3.8.2 or later
anaconda or miniconda
Gooey conda install -c conda-forge gooey(if you get errors during installation or runtime try installing gtk sudo apt-get install libgtk-3-dev)
biopython pip install biopython
pandas pip install pandas
dnachisel pip install dnachisel

linux desktop app installation

open a linux text editor and edit in the python file the shebang line (to find where python is type in the terminal which python3)
convert to executable with chmod +x codon_optimize_cds_with_many_taxidS_singlefasta_gui.py
open a linux text editor and edit the PATHs in the .desktop file
move the file to /usr/share/applications
reboot your machine

Output

The output single-fasta files will have the same prefix as the input ones and as suffix the taxonomy ids of the organisms they are codon optimized for

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Linux GUI app to codon optimize many single-fasta files with coding sequences , using many taxonomy ids

Related tags

Overview

codon_optimize_cds_with_many_taxids_singlefasta

Depedences

linux desktop app installation

Output

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