Mercurial > repos > galaxyp > peptideshaker
comparison macros.xml @ 27:70dade9fb8e3 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/peptideshaker commit 9cae80c2ab1d6c933382cd8584e2d51f3c3d305b-dirty
author | galaxyp |
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date | Fri, 20 May 2016 14:06:55 -0400 |
parents | 3ef5a7dd1a36 |
children | 78fad25eff17 |
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26:3ef5a7dd1a36 | 27:70dade9fb8e3 |
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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"> |