SignalP: Difference between revisions
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= General = | = General = | ||
* Web Site: https://services.healthtech.dtu.dk/services/SignalP-6.0/ | |||
Prediction of Signal Peptides and their cleavage sites in all domains of life | |||
The SignalP 6.0 server predicts the presence of signal peptides and the location of their cleavage sites in proteins from Archaea, Gram-positive Bacteria, Gram-negative Bacteria and Eukarya. | |||
It is a '''licensed software'''. One has to agree to the '''academic license conditions''' before the download link will be provided. | |||
= Installation = | = Installation = | ||
First, you have to install your own conda, following this: | |||
Once you have it installed, activate your [[Conda_on_ARC#Installing_Conda | Conda]]. | |||
Please note that this should be the '''Miniforge3''' install that uses <code>conda-forge</code> channel by default: | |||
$ source ~/software/init-conda | |||
Then create a new environment and activate it too: | |||
<pre> | |||
(base) $ conda create -n signalp6 python=3.11 pip pillow numpy matplotlib tqdm pytorch=1.13 | |||
.... | |||
(base) $ conda activate signalp6 | |||
</pre> | |||
Download and unpack the installation archive. You have to use the link send to you by email: | |||
<pre> | |||
(signalp6) $ wget https://services.healthtech.dtu.dk/download/29d.............7e/signalp-6.0h.fast.tar.gz | |||
(signalp6) $ tar xfv signalp-6.0h.fast.tar.gz | |||
</pre> | |||
Change to the software directory and install it with <code>pip</code>: | |||
<pre> | |||
(signalp6) $ cd signalp6_fast/signalp-6-package | |||
(signalp6) $ pip install . | |||
.... | |||
</pre> | |||
Check if it works: | |||
<pre> | |||
(signalp6) $ $ signalp6 --version | |||
SignalP 6.0 Signal peptide prediction tool 6.0h | |||
</pre> | |||
Success. | |||
= Links = | = Links = | ||
[[ARC Software]] | [[ARC Software]] | ||
Latest revision as of 21:11, 1 October 2024
General
Prediction of Signal Peptides and their cleavage sites in all domains of life
The SignalP 6.0 server predicts the presence of signal peptides and the location of their cleavage sites in proteins from Archaea, Gram-positive Bacteria, Gram-negative Bacteria and Eukarya.
It is a licensed software. One has to agree to the academic license conditions before the download link will be provided.
Installation
First, you have to install your own conda, following this:
Once you have it installed, activate your Conda.
Please note that this should be the Miniforge3 install that uses conda-forge channel by default:
$ source ~/software/init-conda
Then create a new environment and activate it too:
(base) $ conda create -n signalp6 python=3.11 pip pillow numpy matplotlib tqdm pytorch=1.13 .... (base) $ conda activate signalp6
Download and unpack the installation archive. You have to use the link send to you by email:
(signalp6) $ wget https://services.healthtech.dtu.dk/download/29d.............7e/signalp-6.0h.fast.tar.gz (signalp6) $ tar xfv signalp-6.0h.fast.tar.gz
Change to the software directory and install it with pip:
(signalp6) $ cd signalp6_fast/signalp-6-package (signalp6) $ pip install . ....
Check if it works:
(signalp6) $ $ signalp6 --version SignalP 6.0 Signal peptide prediction tool 6.0h
Success.