Mercurial > repos > petr-novak > repeatexplorer2
comparison repex_full_clustering.xml @ 3:f99da6158dae draft
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author | petr-novak |
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date | Wed, 22 Apr 2020 02:27:53 -0400 |
parents | 09747b55badb |
children | fe2220ee2fd1 |
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2:09747b55badb | 3:f99da6158dae |
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126 </param> | 126 </param> |
127 </conditional> | 127 </conditional> |
128 | 128 |
129 <conditional name="options"> | 129 <conditional name="options"> |
130 <param name="options" type="select" label="Similarity search options" help="Different similarity search parameters are used depending on the input data to adjust for differences in read length and error rate"> | 130 <param name="options" type="select" label="Similarity search options" help="Different similarity search parameters are used depending on the input data to adjust for differences in read length and error rate"> |
131 <option value="ILLUMINA" selected="true">Illumina reads, default, all-to-all search uses mgblast, minimal identity 90% </option> | 131 <option value="ILLUMINA" selected="true">Illumina reads, optimized for read length 100 nt or more (search parameters: mgblast, min PID 90, W18) </option> |
132 <option value="ILLUMINA_DUST_OFF" selected="false">Illumina reads, no masking of low complexity repeats </option> | 132 <option value="ILLUMINA_DUST_OFF" selected="false">Illumina reads, no masking of low complexity repeats (search parameters: mgblast, min PID 90, -W18, -F F) </option> |
133 <option value="ILLUMINA_SENSITIVE_MGBLAST" selected="false">all-to-all search is performed using mgblast (W8, min PID 80) slow, experimental feature!</option> | 133 <option value="ILLUMINA_SENSITIVE_MGBLAST" selected="false">Illumina reads, sensitive search (search parameters: mgblast, min PID 80, -W8) slow, experimental feature!</option> |
134 <option value="ILLUMINA_SENSITIVE_BLASTPLUS" selected="false">all-to-all search is performed using blastn (W6, min PID 80) very slow, experimental feature!</option> | 134 <option value="ILLUMINA_SENSITIVE_BLASTPLUS" selected="false">Illumina reads, more sensitive search (search parameters: blastn, min PID 80, -W6) extremely slow, experimental feature!</option> |
135 <option value="OXFORD_NANOPORE" selected="false"> | 135 <option value="OXFORD_NANOPORE" selected="false"> |
136 Pseudo short reads simulated from Oxford Nanopore data, experimental feature! | 136 Pseudo short reads simulated from Oxford Nanopore data, experimental feature! |
137 </option> | 137 </option> |
138 </param> | 138 </param> |
139 </conditional> | 139 </conditional> |