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comparison macros.xml @ 27:70dade9fb8e3 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/peptideshaker commit 9cae80c2ab1d6c933382cd8584e2d51f3c3d305b-dirty
author galaxyp
date Fri, 20 May 2016 14:06:55 -0400
parents 3ef5a7dd1a36
children 78fad25eff17
comparison
equal deleted inserted replaced
26:3ef5a7dd1a36 27:70dade9fb8e3
39 help="Provide error value for fragment ions, based on instrument used"/> 39 help="Provide error value for fragment ions, based on instrument used"/>
40 <param name="enzyme" type="select" label="Enzyme" 40 <param name="enzyme" type="select" label="Enzyme"
41 help="Which enzyme was used for protein digest in experiment? In most cases, trypsin is used"> 41 help="Which enzyme was used for protein digest in experiment? In most cases, trypsin is used">
42 <option value="Trypsin">Trypsin</option> 42 <option value="Trypsin">Trypsin</option>
43 <option value="Arg-C">Arg-C</option> 43 <option value="Arg-C">Arg-C</option>
44 <option value="Semi-Arg-C">Semi-Arg-C</option>
45 <option value="CNBr">CNBr</option> 44 <option value="CNBr">CNBr</option>
46 <option value="Chymotrypsin (FYWL)">Chymotrypsin (FYWL)</option> 45 <option value="Chymotrypsin (FYWL)">Chymotrypsin (FYWL)</option>
47 <option value="Semi-Chymotrypsin (FYWL)">Semi-Chymotrypsin (FYWL)</option>
48 <option value="Formic Acid">Formic Acid</option> 46 <option value="Formic Acid">Formic Acid</option>
49 <option value="Lys-C">Lys-C</option> 47 <option value="Lys-C">Lys-C</option>
50 <option value="Lys-C, no P rule">Lys-C, no P rule</option> 48 <option value="Lys-C, no P rule">Lys-C, no P rule</option>
51 <option value="Pepsin A">Pepsin A</option> 49 <option value="Pepsin A">Pepsin A</option>
52 <option value="Trypsin + CNBr">Trypsin + CNBr</option> 50 <option value="Trypsin + CNBr">Trypsin + CNBr</option>
53 <option value="Trypsin + Chymotrypsin (FYWLKR)">Trypsin + Chymotrypsin (FYWLKR)</option> 51 <option value="Trypsin + Chymotrypsin (FYWLKR)">Trypsin + Chymotrypsin (FYWLKR)</option>
54 <option value="Trypsin, no P rule">Trypsin, no P rule</option> 52 <option value="Trypsin, no P rule">Trypsin, no P rule</option>
55 <option value="whole protein">whole protein</option> 53 <option value="Whole Protein">Whole Protein</option>
56 <option value="Asp-N">Asp-N</option> 54 <option value="Asp-N">Asp-N</option>
57 <option value="Glu-C">Glu-C</option> 55 <option value="Glu-C">Glu-C</option>
58 <option value="Asp-N + Glu-C">Asp-N + Glu-C</option> 56 <option value="Asp-N + Glu-C">Asp-N + Glu-C</option>
59 <option value="Top-Down">Top-Down</option> 57 <option value="Top-Down">Top-Down</option>
60 <option value="Semi-Tryptic">Semi-Tryptic</option> 58 <option value="Semi-Tryptic">Semi-Tryptic</option>
61 <option value="No enzyme">No enzyme</option> 59 <option value="Unspecific">Unspecific (No enzyme)</option> <!-- note: cleaves at every residue! -->
62 <option value="Chymotrypsin, no P rule (FYWL)">Chymotrypsin, no P rule (FYWL)</option> 60 <option value="Chymotrypsin, no P rule (FYWL)">Chymotrypsin, no P rule (FYWL)</option>
63 <option value="Asp-N (DE)">Asp-N (DE)</option> 61 <option value="Asp-N (DE)">Asp-N (DE)</option>
64 <option value="Glu-C (DE)">Glu-C (DE)</option> 62 <option value="Glu-C (DE)">Glu-C (DE)</option>
65 <option value="Lys-N (K)">Lys-N (K)</option> 63 <option value="Lys-N (K)">Lys-N (K)</option>
66 <option value="Thermolysin, no P rule">Thermolysin, no P rule</option> 64 <option value="Thermolysin, no P rule">Thermolysin, no P rule</option>
67 <option value="Semi-Chymotrypsin (FYWL)">Semi-Chymotrypsin (FYWL)</option> 65 <option value="Semi-Chymotrypsin (FYWL)">Semi-Chymotrypsin (FYWL)</option>
68 <option value="Semi-Glu-C">Semi-Glu-C</option> 66 <option value="Semi-Glu-C">Semi-Glu-C</option>
67 <option value="LysargiNase">LysargiNase</option>
68 <option value="Semi-LysargiNase">Semi-LysargiNase</option>
69 <option value="Trypsin + Glu-C">Trypsin + Glu-C</option>
70 <option value="Semi-Arg-C">Semi-Arg-C</option>
71 <option value="Semi-Glu-C (DE)">Semi-Glu-C (DE)</option>
72 <option value="Arg-N">Arg-N</option>
73 <option value="Semi-Arg-N">Semi-Arg-N</option>
69 </param> 74 </param>
70 <param name="missed_cleavages" type="integer" value="2" label="Maximum Missed Cleavages" 75 <param name="missed_cleavages" type="integer" value="2" label="Maximum Missed Cleavages"
71 help="Allow peptides to contain up to this many missed enzyme cleavage sites."/> 76 help="Allow peptides to contain up to this many missed enzyme cleavage sites."/>
72 <param name="fixed_modifications" type="select" label="Fixed Modifications" multiple="true" 77 <param name="fixed_modifications" type="select" label="Fixed Modifications" multiple="true"
73 help="Occurs in known places on peptide sequence. Hold the appropriate key while clicking to select multiple items"> 78 help="Occurs in known places on peptide sequence. Hold the appropriate key while clicking to select multiple items">