From f424be097ddfbe748d0f44cfae6c3de8082edad9 Mon Sep 17 00:00:00 2001 From: Jody Phelan Date: Tue, 11 Feb 2025 22:33:42 +0100 Subject: [PATCH 1/2] Fix typo --- docs/bactopia/assembler.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/bactopia/assembler.md b/docs/bactopia/assembler.md index 154b4752..e9f6f0ca 100644 --- a/docs/bactopia/assembler.md +++ b/docs/bactopia/assembler.md @@ -11,7 +11,7 @@ Illumina and Oxford Nanopore reads. The tools used are: |------|-------------| | [Dragonflye](https://github.com/rpetit3/dragonflye) | Assembly of Oxford Nanopore reads, as well as hybrid assembly with short-read polishing | | [Shovill](https://github.com/tseemann/shovill) | Assembly of Illumina paired-end reads | -| [Shovill-SE](https://github.com/rpetit/shovill) | Assembly of Illumina single-end reads | +| [Shovill-SE](https://github.com/rpetit3/shovill) | Assembly of Illumina single-end reads | | [Unicycler](https://github.com/rrwick/Unicycler) | Hybrid assembly, using short-reads first then long-reads | Summary statistics for each assembly are generated using [assembly-scan](https://github.com/rpetit3/assembly-scan). From b5090fadd15566e46e89e3b4528e12f2aa5926f2 Mon Sep 17 00:00:00 2001 From: Jody Phelan Date: Tue, 11 Feb 2025 22:35:51 +0100 Subject: [PATCH 2/2] Update enhancements.md --- docs/impact-and-outreach/enhancements.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/docs/impact-and-outreach/enhancements.md b/docs/impact-and-outreach/enhancements.md index 272dd0db..f45cb1f4 100644 --- a/docs/impact-and-outreach/enhancements.md +++ b/docs/impact-and-outreach/enhancements.md @@ -46,8 +46,8 @@ independent of Bactopia. | [pbptyper](https://github.com/rpetit3/pbptyper) | In silico Penicillin Binding Protein typer for Streptococcus pneumoniae | | [pmga](https://github.com/rpetit3/pmga) | A fork of PMGA for all Neisseria species and Haemophilus influenzae | | [shovill-se](https://github.com/rpetit3/shovill) | A fork of Shovill that includes support for single end reads | -| [staphopia-sccmec](https://github.com/rpetit3/vcf-annotator) | A standalone version of Staphopia’s SCCmec typing method | -| [vcf-annotator](https://github.com/staphopia/staphopia-sccmec) | Add biological annotations to variants in a given VCF file | +| [staphopia-sccmec](https://github.com/staphopia/staphopia-sccmec) | A standalone version of Staphopia’s SCCmec typing method | +| [vcf-annotator](https://github.com/rpetit3/vcf-annotator) | Add biological annotations to variants in a given VCF file |