Mercurial > repos > iss > eurl_vtec_wgs_pt
diff 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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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/scripts/modules/seq_conf/escherichia_coli/typing.config Mon Mar 21 15:23:09 2022 +0000 @@ -0,0 +1,20 @@ +#reference_file (fasta file full path) +escherichia_coli.fasta +#length_extra_seq (int) +0 +#maximum_number_absent_genes (int) +1 +#maximum_number_genes_multiple_alleles (int) +1 +#minimum_read_coverage (x, int) +25 +#minimum_depth_presence (x, int) +5 +#minimum_depth_call (x, int) +10 +#minimum_depth_frequency_dominant_allele (0-1, double) +0.60 +#minimum_gene_coverage (0-100, int) +60 +#minimum_gene_identity (0-100, int) +70