Mercurial > repos > devteam > samtool_filter2

comparison samtool_filter2.xml @ 4:d3292b4a0c78 draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/samtool_filter2 commit 47865f133813c9e61ffc63d70aad1ff782c645ac
author devteam
date Wed, 27 Jul 2016 15:16:29 -0400
parents c31a37f6d48a
children b7aa423007bf
comparison
equal deleted inserted replaced
3:c31a37f6d48a 4:d3292b4a0c78
92 <option value="0x0040">Read is the first in a pair</option> 92 <option value="0x0040">Read is the first in a pair</option>
93 <option value="0x0080">Read is the second in a pair</option> 93 <option value="0x0080">Read is the second in a pair</option>
94 <option value="0x0100">The alignment or this read is not primary</option> 94 <option value="0x0100">The alignment or this read is not primary</option>
95 <option value="0x0200">The read fails platform/vendor quality checks</option> 95 <option value="0x0200">The read fails platform/vendor quality checks</option>
96 <option value="0x0400">The read is a PCR or optical duplicate</option> 96 <option value="0x0400">The read is a PCR or optical duplicate</option>
97 <option value="0x0800">Supplementary alignment</option>
97 </param> 98 </param>
98 <param name="skipBits" type="select" multiple="true" display="checkboxes" label="Skip alignments with any of these flag bits set" help="(-F)"> 99 <param name="skipBits" type="select" multiple="true" display="checkboxes" label="Skip alignments with any of these flag bits set" help="(-F)">
99 <option value="0x0001">Read is paired</option> 100 <option value="0x0001">Read is paired</option>
100 <option value="0x0002">Read is mapped in a proper pair</option> 101 <option value="0x0002">Read is mapped in a proper pair</option>
101 <option value="0x0004">The read is unmapped</option> 102 <option value="0x0004">The read is unmapped</option>
105 <option value="0x0040">Read is the first in a pair</option> 106 <option value="0x0040">Read is the first in a pair</option>
106 <option value="0x0080">Read is the second in a pair</option> 107 <option value="0x0080">Read is the second in a pair</option>
107 <option value="0x0100">The alignment or this read is not primary</option> 108 <option value="0x0100">The alignment or this read is not primary</option>
108 <option value="0x0200">The read fails platform/vendor quality checks</option> 109 <option value="0x0200">The read fails platform/vendor quality checks</option>
109 <option value="0x0400">The read is a PCR or optical duplicate</option> 110 <option value="0x0400">The read is a PCR or optical duplicate</option>
111 <option value="0x0800">Supplementary alignment</option>
110 </param> 112 </param>
111 </when> 113 </when>
112 </conditional> 114 </conditional>
113 <param name="library" type="text" value="" label="Select alignments from Library" 115 <param name="library" type="text" value="" label="Select alignments from Library"
114 help="(-l) Requires headers in the input SAM or BAM, otherwise no alignments will be output"/> 116 help="(-l) Requires headers in the input SAM or BAM, otherwise no alignments will be output"/>