Individually annotate long, error-prone nucleotide sequences into proteins
Install Python and Pipx:
brew update && brew install python pipx
Ensure that your PATH environment variable is all set:
pipx ensurepath
š” You might need to close your terminal and reopen it for the changes to take effect.
Install Python:
sudo apt update && \
sudo apt install python3 python3-pip python3-venv --yes && \
python3 -m pip install --user pipx
Ensure that your PATH environment variable is all set:
python3 -m pipx ensurepath
š” You might need to close your terminal and reopen it for the changes to take effect.
pipx install deciphon
Usage: deciphon [OPTIONS] COMMAND [ARGS]...
āā Options āāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāā®
ā --version Show version. ā
ā --help Show this message and exit. ā
ā°āāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāÆ
āā Commands āāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāā®
ā press Make protein database. ā
ā scan Scan nucleotide sequence against protein database. ā
ā see Display scan results. ā
ā worker Launch worker. ā
ā°āāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāāÆ
Download the minifam.hmm protein database:
curl -O https://raw.githubusercontent.com/EBI-Metagenomics/deciphon/main/cli/tests/files/minifam.hmm
Download the consensus.fna file of sequences:
curl -O https://raw.githubusercontent.com/EBI-Metagenomics/deciphon/main/cli/tests/files/sequences.fna
Press it (using The Standard Code):
deciphon press minifam.hmm 1
Scan it:
deciphon scan minifam.hmm sequences.fna
Show it:
deciphon see sequences.dcs
Give a āļø if this project helped you!
FAQs
Individually annotate long, error-prone nucleotide sequences into proteins
We found that deciphon demonstrated a healthy version release cadence and project activity because the last version was released less than a year ago.Ā It has 1 open source maintainer collaborating on the project.
Did you know?
Socket for GitHub automatically highlights issues in each pull request and monitors the health of all your open source dependencies. Discover the contents of your packages and block harmful activity before you install or update your dependencies.
Security News
New research reveals that LLMs often fake understanding, passing benchmarks but failing to apply concepts or stay internally consistent.
Security News
Django has updated its security policies to reject AI-generated vulnerability reports that include fabricated or unverifiable content.
Security News
ECMAScript 2025 introduces Iterator Helpers, Set methods, JSON modules, and more in its latest spec update approved by Ecma in June 2025.