From 4ad275b931b2ef1b1b4956765088fb0d52d13940 Mon Sep 17 00:00:00 2001 From: Meena Chakraborty Date: Mon, 31 Oct 2022 16:08:44 -0700 Subject: [PATCH] fix typo --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 61566c1..1505674 100644 --- a/README.md +++ b/README.md @@ -161,7 +161,7 @@ This section contains a description of the additional parameters in the config f * `cov_thresh_viral` (default `0.1`). This parameter can range from 0 to 1 and specifies a genome coverage requirement for a viral species to be considered a "true positive" in a sample. For example, if this parameter is 0.1, that means that for a viral species to be considered a true positive in a sample, at least one genome of the species must be at least 10% covered by sample reads. * Each genome's coverage is estimated by dividing: * The number of unique minimizers in the genome that are covered by sample reads, by - * The total number of unique minimizers in the genome. + * The total number of minimizers in the genome. * *Terminology note* - minimizers are very similar to kmers; for a more detailed description of what they are, please see [the Kraken2 paper](https://genomebiology.biomedcentral.com/articles/10.1186/s13059-019-1891-0). * `minimizer_thresh_viral` (default `0`). This parameter can take any value >= 0 and specifies an additional requirement for a viral species to be considered true positive in a sample. E.g., if this parameter is 10, that means at least one genome of the species must have 10+ of its unique minimizers covered by sample reads. * `cov_thresh_bacterial` and `minimizer_thresh_bacterial` are the analogous parameters for filtering bacterial species.