mykle hoban

Params case translation between camelCase and kebab-case doesn't always work as expected

10

## Bug report ### Expected behavior and actual behavior Parameters are sometimes incorrectly translated between camelCase and kebab-case. Particularly, when default values of `params` are defined in nextflow.config, the translation...

Scoping issues in subset_taxa (and probably other similar functions)

1

The function `subset_taxa` (and probably other similar functions that use ellipses to pass subset expressions) can only handle expressions passed where all referenced objects are in the global scope, so...

How to use circos.labels with chordDiagram?

1

I'd like to use the overlap-avoidance of `circos.labels` to label sectors on a a `chordDiagram`. I've got it to where I can plot the labels, but I can't get them...

Add r-package containers for mhoban/assesspool

5

Adding two containers: conda-forge::r-poolfstat=3.0.0 r-optparse=1.7.5 r-tibble=3.2.1 r-stringr=1.5.1 r-readr=2.1.5 r-dplyr=1.1.4 and: r-dplyr=1.1.4 r-tidyr=1.3.1 r-readr=2.1.5 r-janitor=2.2.1 r-purrr=1.0.4 r-optparse=1.7.5 r-matrixstats=1.5.0

Possible to include read depth information in `fst` output?

12

I'm curious if there's any way to get some sort of read depth information from the `grenedalf fst` output? `popoolation2` and `poolfstat` include the average minimum read depth for positions...

Using COUNT with bcftools filter across all samples

2

Is there a way to use `bcftools filter` with COUNT to return only positions with a certain number of values for a given FORMAT entry across all samples? For example,...

I'm getting no matches for anything, despite having pointed jellyfin at the same directory used by Plex. I tried changing the metadata agents to TVDB and "the movie DB" per...