Mercurial > repos > iuc > trinity_align_and_estimate_abundance
comparison align_and_estimate_abundance.xml @ 15:56162e446004 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/trinity commit f5736e63d4d4210c33eea4a1985508466c3c168d"
author | iuc |
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date | Tue, 11 Feb 2020 12:18:36 -0500 |
parents | 6d6b72d14170 |
children | 893655fa55f9 |
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14:983552d5822d | 15:56162e446004 |
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39 --transcripts input.fa | 39 --transcripts input.fa |
40 | 40 |
41 --est_method $method.est_method | 41 --est_method $method.est_method |
42 #if $method.est_method == "RSEM": | 42 #if $method.est_method == "RSEM": |
43 --aln_method $method.aln_method | 43 --aln_method $method.aln_method |
44 #else if $method.est_method == "salmon": | |
45 --salmon_idx_type $method.salmon_idx_type | |
46 #end if | 44 #end if |
47 | 45 |
48 #if $inputs.paired_or_single == "paired": | 46 #if $inputs.paired_or_single == "paired": |
49 | 47 |
50 #if $inputs.left_input.is_of_type('fasta'): | 48 #if $inputs.left_input.is_of_type('fasta'): |
131 <option value="bowtie">Bowtie</option> | 129 <option value="bowtie">Bowtie</option> |
132 <option value="bowtie2">Bowtie2</option> | 130 <option value="bowtie2">Bowtie2</option> |
133 </param> | 131 </param> |
134 </when> | 132 </when> |
135 <when value="salmon"> | 133 <when value="salmon"> |
136 <param type="select" name="salmon_idx_type" argument="--salmon_idx_type" label="Index type"> | |
137 <option value="quasi">Quasi</option> | |
138 <option value="fmd">FMD</option> | |
139 </param> | |
140 </when> | 134 </when> |
141 <when value="kallisto"> | 135 <when value="kallisto"> |
142 </when> | 136 </when> |
143 </conditional> | 137 </conditional> |
144 | 138 |