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3 "annotation": "Runs Glimmer3 to predict genes in microbial DNA using a training set of known genes.<br />\n<br />\nThis workflow is <a href=\"http://toolshed.g2.bx.psu.edu/view/bgruening/glimmer_gene_calling_workflow\" target=\"_blank\">available on the Galaxy Tool Shed</a> with a README file giving more information including sample data, and full citation details (Cock et al. 2013).",
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4 "format-version": "0.1",
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5 "name": "Glimmer gene calling with trainingset.",
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7 "0": {
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8 "annotation": "Nucleotide FASTA file of gene sequences used to train the gene calling of glimmer.",
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12 {
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13 "description": "Nucleotide FASTA file of gene sequences used to train the gene calling of glimmer.",
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14 "name": "Set of Genes"
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15 }
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16 ],
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17 "name": "Input dataset",
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18 "outputs": [],
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27 "type": "data_input",
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28 "user_outputs": []
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29 },
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30 "1": {
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31 "annotation": "Nucleotide FASTA file of genomic DNA (e.g. assembled contigs) to find genes in.",
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35 {
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36 "description": "Nucleotide FASTA file of genomic DNA (e.g. assembled contigs) to find genes in.",
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37 "name": "Input Genomic Sequence"
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38 }
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39 ],
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60 }
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61 },
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62 "inputs": [],
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63 "name": "Glimmer ICM builder",
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64 "outputs": [
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65 {
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67 "type": "data"
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99 }
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102 "name": "Glimmer3",
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103 "outputs": [
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125 "tool_version": "0.2",
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127 "user_outputs": []
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128 },
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129 "4": {
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130 "annotation": "We expect our input sequences to have a trailing stop codon, but do not want the star character in the protein output.",
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131 "id": 4,
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132 "input_connections": {
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133 "input1": {
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135 "output_name": "genes_output"
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139 "name": "transeq",
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140 "outputs": [
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142 "name": "out_file1",
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143 "type": "fasta"
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154 "tool_version": "5.0.0",
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159 } |
