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comparison PhageDPO.xml @ 42:e3d2637686a0 draft

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author jose_duarte
date Thu, 21 Nov 2024 14:43:41 +0000
parents 19a57d76f3b3
children ff949d77ed98
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41:ddd9e3b58525 42:e3d2637686a0
1 <tool id="PhageDPO" name="PhageDPO" version="0.1.0" python_template_version="3.5"> 1 <help><![CDATA[
2 <description> 2
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
29 ======== 3 ========
30 PhageDPO 4 PhageDPO
31 ======== 5 ========
32 6
33 Predicts the existance of Phage Polysaccharide Depolymerase. 7 Predicts the existence of Phage Polysaccharide Depolymerase.
34 8
35 PhageDPO is a python script that predicts the existance of depolymerases (DPOs) using supervised machine learning models. 9 PhageDPO is a python script that predicts the existence of depolymerases (DPOs) using supervised machine learning models.
36 10
37 **Inputs:** 11 **Inputs:**
38 12
39 * fasta file: fasta file format contain the nucleotide sequences. 13 * fasta file: fasta file format containing the nucleotide sequences.
40 14
41 **Outputs:** 15 **Outputs:**
42 16
43 The tool outputs an html file containing the name of the sequence and the percentage of positive prediction for DPO. 17 The tool outputs an html file containing the name of the sequence and the percentage of positive prediction for DPO.
44 18
45 **Requirements:** 19 **Requirements:**
46 20
47 * Biopython 21 * Biopython
48 * Sklearn 22 * Sklearn
49 * Numpy 23 * Numpy
50 * Pandas 24 * Pandas
51 25
52 ]]></help> 26 ---
53 </tool> 27
28 ### Send Feedback
29
30 If you have feedback or suggestions, please feel free to email us by clicking the button below:
31
32 <!-- Create a button linking to the email -->
33 <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>
34
35 ]]></help>