Mercurial > repos > nml > sistr_cmd

view test-data/sistr-results.tabular @ 5:24a7a95867b0 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload commit 683b11f79a83cf9e1563e46a75919157fa1136d4"
author nml
date Fri, 19 Mar 2021 20:09:37 +0000
parents 17fcac7ddf54
children
line wrap: on
line source

cgmlst_ST	cgmlst_distance	cgmlst_found_loci	cgmlst_genome_match	cgmlst_matching_alleles	cgmlst_subspecies	fasta_filepath	genome	h1	h2	mash_distance	mash_genome	mash_match	mash_serovar	mash_subspecies	o_antigen	qc_messages	qc_status	serogroup	serovar	serovar_antigen	serovar_cgmlst
	0.8272727272727273	58	2014-LET-0419	57	enterica	/galaxy/database/files/000/dataset_695.dat	AE014613-699860	-	-	1.0		0			-	FAIL: Large number of cgMLST330 loci missing (n=272 > 30) | FAIL: Wzx/Wzy genes missing. Cannot determine O-antigen group/serogroup. Cannot accurately predict serovar from antigen genes. | INFO: Number of cgMLST330 loci found (n=58) | WARNING: H1 antigen gene (fliC) missing. Cannot determine H1 antigen. Cannot accurately predict serovar from antigen genes. | WARNING: Input genome size (699860 bp) not within expected range of 4000000-6000000 (bp) for Salmonella | WARNING: Only matched 57 cgMLST330 loci. Min threshold for confident serovar prediction from cgMLST is 297.0	FAIL	-	-:-:-	-:-:-	Typhi