Overhaul and quantification workflow

IMPORTANT FOR GUI USAGE: This release requires .NET 5.0. Please download the .NET Runtime here https://dotnet.microsoft.com/download/dotnet/5.0.
IMPORTANT FOR CMD USAGE: Please update your conda environment to make sure .NET 5.0 runtime is available.

New features:

Using conda environments for every rule to allow snakemake --use-conda to be more efficient if a subset of workflows is selected
Adding quick quantification with StringTie2 of both assembled isoforms and reference transcripts, and summarizing the quant results in a table
New SpritzCMD commandline interface that wraps snakemake for usage in a base conda environment

Bug fixes:

Other improvements:

TransferUniProtModifications now named SpritzModifications
Removed duplicate biopython reference
Restructuring folders according to https://snakemake.readthedocs.io/en/stable/snakefiles/deployment.html
Removed -SO coordinate from AddReadGroups in variant workflow because it looks like that triggers a followup sort
Allocated double GATK's normal RAM to MarkDuplicates because it runs close to the RAM limit
Removing fusion workflow, since it's not integrated and I don't have plans to do so in the near future
Removed aspera-cli because SRA-prefetch isn't really using it but still getting 10x faster downloads with HTTPS than fasterq-dump

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