From 20fab33946d81936fd5a3e232ddfbdf00f5b4d74 Mon Sep 17 00:00:00 2001 From: Remi Denise Date: Tue, 4 Jan 2022 23:38:24 +0100 Subject: [PATCH] :memo: Update accordingly to pull request #219 --- README.md | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/README.md b/README.md index 13f30e2..e96fa63 100644 --- a/README.md +++ b/README.md @@ -18,7 +18,7 @@ viral genomes quickly and produce standards-compliant output files. If you use [Conda](https://conda.io/docs/install/quick.html) you can use the [Bioconda channel](https://bioconda.github.io/): ``` -conda install -c conda-forge -c bioconda -c defaults prokka +conda install -c conda-forge -c rdenise -c defaults prokka ``` ### Brew @@ -229,6 +229,7 @@ $HOME/prokka/bin/prokka --setupdb --proteins [X] Fasta file of trusted proteins to first annotate from (default '') --hmms [X] Trusted HMM to first annotate from (default '') --metagenome Improve gene predictions for highly fragmented genomes (default OFF) + --partialgenes Allow genes to run off edges, yielding incomplete genes (no closed ends option in prodigal) (default OFF) --rawproduct Do not clean up /product annotation (default OFF) Computation: --fast Fast mode - skip CDS /product searching (default OFF)