Zachary Konkel

Overlapping clusters

1

I'm getting clusters that have overlapping nodes. My assumption is that clusters should have completely distinct sets of nodes. Is my assumption wrong or is this an error?

cannot get protonvpn to work on Arch

1

I have attempted to get this official tool to work on Arch for well over a year on different systems, to no avail. I've had to revert to the old...

Must restart system to switch to nvidia

11

**Describe the bug** Can switch to nvidia driver if I set it as startup. Can switch back to intel and relogin to apply. Cannot switch to nvidia unless a full...

orthofiller's hmmer commands raise a makehmmerdb bug that may lead to memory reallocation errors

1

See: https://github.com/EddyRivasLab/hmmer/issues/213

IMPORTANT DEPENDENCY VERSION INFORMATION

1

Please update the readme to reflect necessary software versions. `hmmer 3.1b2` - newer versions recognize `hmmerfm` database format implicitly; currently `orthofiller.py` explicitly references the format in the `nhmmer` command `orthofinder...

Add mycotools

1

Add [Mycotools](https://github.com/xonq/mycotools) to bioconda channel ---- Please read the [guidelines for Bioconda recipes](https://bioconda.github.io/contributor/guidelines.html) before opening a pull request (PR). ### General instructions * If this PR adds or updates a...

I was not able to download bacteria database by FTP or rsync, per recent issues 518 and 797. I implemented @togop 's fix to successfully allow for trying an HTTPS/FTP...

[Rabies] Initialize Lyssavirus rabies all-clades community dataset

4

This pull request initializes a *Lyssavirus rabies* (rabies) Nextclade dataset with clade-subclade resolution. Created in collaboration with @kimandrews and with subject matter expertise/user input from Massachusetts Department of Public Health....