Mercurial > repos > iss > eurl_vtec_wgs_pt
annotate scripts/modules/seq_conf/escherichia_coli/typing.config @ 0:c6bab5103a14 draft
"planemo upload commit 6abf3e299d82d07e6c3cf8642bdea80e96df64c3-dirty"
author | iss |
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date | Mon, 21 Mar 2022 15:23:09 +0000 |
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c6bab5103a14
"planemo upload commit 6abf3e299d82d07e6c3cf8642bdea80e96df64c3-dirty"
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1 #reference_file (fasta file full path) |
c6bab5103a14
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2 escherichia_coli.fasta |
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3 #length_extra_seq (int) |
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4 0 |
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5 #maximum_number_absent_genes (int) |
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6 1 |
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7 #maximum_number_genes_multiple_alleles (int) |
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8 1 |
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9 #minimum_read_coverage (x, int) |
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10 25 |
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11 #minimum_depth_presence (x, int) |
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12 5 |
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13 #minimum_depth_call (x, int) |
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14 10 |
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15 #minimum_depth_frequency_dominant_allele (0-1, double) |
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16 0.60 |
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17 #minimum_gene_coverage (0-100, int) |
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18 60 |
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19 #minimum_gene_identity (0-100, int) |
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20 70 |