snakemakelib

snakemakelib copied to clipboard

star ignores extra references

1

percyfal

percyfal

Create summary rule for rpkmforgenes

1

percyfal

Currently we're setting references, indices etc via functions in a manner that is hidden from the user. All these functions (annotation, index, ref, etc) should be placed in metadata-specific modules...

percyfal

Make rules independent of snakemakelib package

1

It should be possible to include rules without making use of snakemakelib functionality. We can still set configuration defaults, but they should be general enough to be included without installing...

percyfal

Interact with module system (see https://github.com/TACC/Lmod). Add configuration variable to list modules that should be loaded.

percyfal

For quality control settings, basically, allow for a list of expressions with keywords like ">10", "

percyfal

Basically allow for documentation strings. It is becoming more and more obvious that documentation strings are needed. One solution could be to define configuration entries as 3-tuples of (default, config,...

percyfal

percyfal

Add label region_{LABEL} to region-based analyses, e.g. region_chr1

percyfal