|
43
|
1 <tool id="PhageDPO" name="PhageDPO" version="0.1.0" python_template_version="3.5">
|
|
|
2 <description>
|
|
|
3 Phage Depolymerase Finder
|
|
|
4 </description>
|
|
|
5 <requirements>
|
|
|
6 <requirement type="package" version="1.78">biopython</requirement>
|
|
|
7 <requirement type="package" version="0.24.1">scikit-learn</requirement>
|
|
|
8 <requirement type="package" version="1.19.2">numpy</requirement>
|
|
|
9 <requirement type="package" version="1.2.3">pandas</requirement>
|
|
|
10 </requirements>
|
|
|
11 <command detect_errors="exit_code"><![CDATA[
|
|
|
12 python '$__tool_directory__/DPOGALAXY.py' '${input1}'
|
|
|
13 ]]></command>
|
|
|
14 <inputs>
|
|
|
15 <param type="data" name="input1" format="fasta" label="Fasta file"/>
|
|
|
16 </inputs>
|
|
|
17 <outputs>
|
|
|
18 <data name="output1" format="html" from_work_dir="output.html"
|
|
|
19 label="DPO Prediction"/>
|
|
|
20 </outputs>
|
|
|
21 <tests>
|
|
|
22 <test>
|
|
|
23 <param name="input1" value="fasta_file.fasta"/>
|
|
|
24 <output name="output1" file="output.html"/>
|
|
|
25 </test>
|
|
|
26 </tests>
|
|
|
27 <help><![CDATA[
|
|
|
28
|
|
42
|
29 ========
|
|
|
30 PhageDPO
|
|
|
31 ========
|
|
|
32
|
|
|
33 Predicts the existence of Phage Polysaccharide Depolymerase.
|
|
|
34
|
|
|
35 PhageDPO is a python script that predicts the existence of depolymerases (DPOs) using supervised machine learning models.
|
|
|
36
|
|
|
37 **Inputs:**
|
|
|
38
|
|
|
39 * fasta file: fasta file format containing the nucleotide sequences.
|
|
|
40
|
|
|
41 **Outputs:**
|
|
|
42
|
|
|
43 The tool outputs an html file containing the name of the sequence and the percentage of positive prediction for DPO.
|
|
|
44
|
|
|
45 **Requirements:**
|
|
|
46
|
|
|
47 * Biopython
|
|
|
48 * Sklearn
|
|
|
49 * Numpy
|
|
|
50 * Pandas
|
|
|
51
|
|
|
52
|
|
44
|
53 Send Feedback
|
|
42
|
54
|
|
|
55 If you have feedback or suggestions, please feel free to email us by clicking the button below:
|
|
|
56
|
|
|
57 <a href="mailto:mfernandasvieira@ceb.uminho.pt?subject=PhageDPO%20Feedback" style="padding:10px; background-color:#4CAF50; color:white; text-decoration:none; border-radius:5px;">Send Feedback</a>
|
|
|
58
|
|
|
59 ]]></help>
|
