Mercurial > repos > galaxyp > openms_msfraggeradapter
comparison MSFraggerAdapter.xml @ 1:5a9c3e827da5 draft
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f5fcdd54599554099fb00b1973cc91a766ad246a"
author | galaxyp |
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date | Wed, 23 Sep 2020 15:01:51 +0000 |
parents | 52a0856534d9 |
children | 6bcc338b9dc6 |
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0:52a0856534d9 | 1:5a9c3e827da5 |
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87 <expand macro="list_string_san"/> | 87 <expand macro="list_string_san"/> |
88 </param> | 88 </param> |
89 </section> | 89 </section> |
90 <section name="digest" title="In-Silico Digestion Parameters" help="" expanded="false"> | 90 <section name="digest" title="In-Silico Digestion Parameters" help="" expanded="false"> |
91 <param name="search_enzyme_name" argument="-digest:search_enzyme_name" type="select" optional="false" label="Name of the enzyme to be written to the pepXML file" help=""> | 91 <param name="search_enzyme_name" argument="-digest:search_enzyme_name" type="select" optional="false" label="Name of the enzyme to be written to the pepXML file" help=""> |
92 <option value="Glu-C+P">Glu-C+P</option> | |
93 <option value="PepsinA + P">PepsinA + P</option> | 92 <option value="PepsinA + P">PepsinA + P</option> |
94 <option value="cyanogen-bromide">cyanogen-bromide</option> | 93 <option value="cyanogen-bromide">cyanogen-bromide</option> |
95 <option value="Clostripain/P">Clostripain/P</option> | 94 <option value="Clostripain/P">Clostripain/P</option> |
96 <option value="elastase-trypsin-chymotrypsin">elastase-trypsin-chymotrypsin</option> | 95 <option value="elastase-trypsin-chymotrypsin">elastase-trypsin-chymotrypsin</option> |
97 <option value="no cleavage">no cleavage</option> | 96 <option value="no cleavage">no cleavage</option> |
98 <option value="unspecific cleavage">unspecific cleavage</option> | 97 <option value="unspecific cleavage">unspecific cleavage</option> |
98 <option value="leukocyte elastase">leukocyte elastase</option> | |
99 <option value="proline endopeptidase">proline endopeptidase</option> | |
100 <option value="glutamyl endopeptidase">glutamyl endopeptidase</option> | |
101 <option value="Alpha-lytic protease">Alpha-lytic protease</option> | |
99 <option value="2-iodobenzoate">2-iodobenzoate</option> | 102 <option value="2-iodobenzoate">2-iodobenzoate</option> |
100 <option value="iodosobenzoate">iodosobenzoate</option> | 103 <option value="iodosobenzoate">iodosobenzoate</option> |
101 <option value="staphylococcal protease/D">staphylococcal protease/D</option> | 104 <option value="staphylococcal protease/D">staphylococcal protease/D</option> |
102 <option value="proline-endopeptidase/HKR">proline-endopeptidase/HKR</option> | 105 <option value="proline-endopeptidase/HKR">proline-endopeptidase/HKR</option> |
103 <option value="V8-E">V8-E</option> | 106 <option value="Glu-C+P">Glu-C+P</option> |
104 <option value="leukocyte elastase">leukocyte elastase</option> | 107 <option value="Lys-C/P">Lys-C/P</option> |
108 <option value="PepsinA">PepsinA</option> | |
105 <option value="Arg-C">Arg-C</option> | 109 <option value="Arg-C">Arg-C</option> |
106 <option value="Arg-C/P">Arg-C/P</option> | 110 <option value="Arg-C/P">Arg-C/P</option> |
107 <option value="Asp-N">Asp-N</option> | 111 <option value="Asp-N">Asp-N</option> |
108 <option value="Asp-N/B">Asp-N/B</option> | 112 <option value="Asp-N/B">Asp-N/B</option> |
109 <option value="Asp-N_ambic">Asp-N_ambic</option> | 113 <option value="Asp-N_ambic">Asp-N_ambic</option> |
111 <option value="Chymotrypsin/P">Chymotrypsin/P</option> | 115 <option value="Chymotrypsin/P">Chymotrypsin/P</option> |
112 <option value="CNBr">CNBr</option> | 116 <option value="CNBr">CNBr</option> |
113 <option value="Formic_acid">Formic_acid</option> | 117 <option value="Formic_acid">Formic_acid</option> |
114 <option value="Lys-C">Lys-C</option> | 118 <option value="Lys-C">Lys-C</option> |
115 <option value="Lys-N">Lys-N</option> | 119 <option value="Lys-N">Lys-N</option> |
116 <option value="Lys-C/P">Lys-C/P</option> | |
117 <option value="PepsinA">PepsinA</option> | |
118 <option value="TrypChymo">TrypChymo</option> | 120 <option value="TrypChymo">TrypChymo</option> |
119 <option value="Trypsin/P">Trypsin/P</option> | 121 <option value="Trypsin/P">Trypsin/P</option> |
120 <option value="V8-DE">V8-DE</option> | 122 <option value="V8-DE">V8-DE</option> |
121 <option value="proline endopeptidase">proline endopeptidase</option> | 123 <option value="V8-E">V8-E</option> |
122 <option value="glutamyl endopeptidase">glutamyl endopeptidase</option> | |
123 <option value="Alpha-lytic protease">Alpha-lytic protease</option> | |
124 <option value="Trypsin" selected="true">Trypsin</option> | 124 <option value="Trypsin" selected="true">Trypsin</option> |
125 <expand macro="list_string_san"/> | 125 <expand macro="list_string_san"/> |
126 </param> | 126 </param> |
127 <param name="search_enzyme_cutafter" argument="-digest:search_enzyme_cutafter" type="text" optional="true" value="KR" label="Residues after which the enzyme cuts (specified as a string of amino acids)" help=""> | 127 <param name="search_enzyme_cutafter" argument="-digest:search_enzyme_cutafter" type="text" optional="true" value="KR" label="Residues after which the enzyme cuts (specified as a string of amino acids)" help=""> |
128 <expand macro="list_string_san"/> | 128 <expand macro="list_string_san"/> |
248 <tests> | 248 <tests> |
249 <expand macro="autotest_MSFraggerAdapter"/> | 249 <expand macro="autotest_MSFraggerAdapter"/> |
250 <expand macro="manutest_MSFraggerAdapter"/> | 250 <expand macro="manutest_MSFraggerAdapter"/> |
251 </tests> | 251 </tests> |
252 <help><![CDATA[Peptide Identification with MSFragger | 252 <help><![CDATA[Peptide Identification with MSFragger |
253 | 253 ]]></help> |
254 | |
255 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/latest/html/TOPP_MSFraggerAdapter.html]]></help> | |
256 <expand macro="references"/> | 254 <expand macro="references"/> |
257 </tool> | 255 </tool> |