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:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics
There's a new version of tb-profiler! Looks like are some small changes to the prior version: https://github.com/jodyphelan/TBProfiler/releases I updated the base image to micromamba 1.5.8, updated the software version arg...
### What container needs an update? RAxML (https://github.com/stamatak/standard-RAxML/releases/tag/v8.2.13) and RAxML-NG (https://github.com/amkozlov/raxml-ng/releases/tag/1.2.1) have new versions. The 8.2.12 Dockerfile is from 4 years ago. This image needs - An updated base -...
There's a new version of panaroo! More information can be found in the [release notes](https://github.com/gtonkinhill/panaroo/releases/tag/v1.4.2), but basically genes can have really long names now. I copied the prior Dockerfile and...
There's a new version of pycirclize! Release notes: https://github.com/moshi4/pyCirclize/releases/tag/v1.3.0 I just copied the prior version's files and update the softare version ARG. ``` $ diff pycirclize/1.2.0/Dockerfile pycirclize/1.3.0/Dockerfile 3c3 < ARG...
There's a new version of augur! Release notes: https://github.com/nextstrain/augur/releases/tag/24.3.0 I just copied the files from 24.2.3. Here's the diff between the two files: ``` $ diff augur/24.2.3/Dockerfile augur/24.3.0/Dockerfile 3c3 <...
There's a new version of iqtree2! This one is a [major release](https://github.com/iqtree/iqtree2/releases/tag/v2.3.1): > This is a major release which now supports for the new Apple Mx (ARM) chips and a...
There's a new version of gfastats! Nothing is listed in the release notes (https://github.com/vgl-hub/gfastats/releases/tag/v1.3.7), but I'm sure there's new features or bug fixes. The file that used to get download...
### What tool are you looking for and why? I came across [assembly_snptyper](https://github.com/boasvdp/assembly_snptyper) via SLACK correspondence. I have found it useful to check if Group A Strep (GAS) isolates (generally...
### What tool are you looking for and why? https://github.com/HKU-BAL/Clair3 variant caller for nanopore data. They provide a dockerfile and pre-built images on dockerhub but may be useful to add...
There's a new version of poppunk! Release notes: https://github.com/bacpop/PopPUNK/releases/tag/v2.6.5 > Enables correct visualisation of external clustering. I just updated the software version ARG and adjusted the tabs for my text...