pvanheus
pvanheus
Examples have a minor error, refer to service ganglia instead of gmond.
`gem` install requires a working Ruby environment. As an alternative, a Singularity containers can be build and used to run CrystalSCAD. This PR adds instructions for that.
Hi everyone I have been working with the National Institute for Communicable Diseases (NICD) on some of their SARS-CoV-2 sequencing. I adapted the "variation" workflow to call variants in Illumina...
Feel free to ignore if this is too much of an edge case for your module, but I found a need to serialise dataclasses to JSON that had NumPy types...
This adds the ability to run [IRIDA](https://irida.ca/) and Galaxy simultaneously. IRIDA is available on port 80 with Galaxy on port 90. Current status is that this works, but it needs...
[tp_find_and_replace](https://github.com/bgruening/galaxytools/blob/master/tools/text_processing/text_processing/find_and_replace.xml) is sometimes used repeatedly in workflows like the [COVID-19: variant analysis reporting](https://github.com/galaxyproject/iwc/tree/main/workflows/sars-cov-2-variant-calling/sars-cov-2-variation-reporting). This is inefficient and could be made more efficient by the use of `` in this tool....
Shovill 1.0.9 [switched](https://github.com/tseemann/shovill/blob/v1.0.9/bin/shovill#L124) to using `Cwd::abs_path()` instead of `File::Spec->rel2abs()` that was used previously. The Galaxy wrapper [uses symbolic links](https://github.com/galaxyproject/tools-iuc/blob/master/tools/shovill/shovill.xml#L14) to link the ".dat" files from the Galaxy data store to...
Tutorials can have nice, colourful tags. It would be very nice to search or filter the tutorial collection by tag e.g. when clicking on the tag. Current searching seems to...
[FastQC](https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc) is a very widely used tool in Galaxy. In almost all cases, the only parameter that is completed is the "Raw read data from current history" one. The other...
[viralVerify[(https://github.com/ablab/viralVerify) is a tool to classify contigs as viral, non-viral or uncertain based on gene content. It is useful for working on metagenomic sequencing runs when looking for viral content....