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Differential absence/presence srst2 VF/AMRs

Multiple Fisher's exact tests on VF & AMR presence absence in ST303 vs non-ST303 strains.
Added by Katie Lennard over 4 years ago

These results were updated at Stefan's request to include 5 samples previously typed as 'not found' (NF) due to one marker (of 6 total)that differed from the ST303 type. We decided that these are most likely ST303 as it does not match any other known sequence types. They were therefore included with ST303s in the differential fisher's exact testing. This resulted in 51 significant features after multiple testing correction. Results attached.

srst2_ST303_significant_VFs_fisher_v2.csv (3.84 KB) srst2_ST303_significant_VFs_fisher_v2.csv Katie Lennard, 08/03/2020 11:57 AM
ST303heatMapPAM_VFs_rectangle_hclust_fisher_significant_plusAMR_v3.pdf (78.8 KB) ST303heatMapPAM_VFs_rectangle_hclust_fisher_significant_plusAMR_v3.pdf Katie Lennard, 08/03/2020 11:57 AM
P_aerug_ggtree_v4.R (21.1 KB) P_aerug_ggtree_v4.R Katie Lennard, 08/03/2020 11:58 AM

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