Threads for individual workflow tasks

Task ingest
threads_high	threads_medium	threads_low
Creating h5mu from filtered data files	load_mudatas	run_repertoire_qc
Creating h5mu from bg data files	load_bg_mudatas	run_atac_qc
rna QC	downsample_bg_mudatas	plot_qc
prot QC	run_scrublet	10X metrics plotting
prot QC
Task preprocess
threads_high	threads_medium	threads_low
assess background		filter_mudata
rna_preprocess		downsample
prot_preprocess		postfilterplot
atac_preprocess
Task integration
threads_high	threads_medium	threads_low
run_no_batch_correct_rna	Evaluation	run_lisi
run_bbknn_rna	plot_umaps
run_harmony_rna	run_scib_metrics
run_combat_rna
run_scanorama_rna
run_scvi_rna
run_no_batch_correct_prot
run_harmony_prot
run_bbknn_prot
run_combat_prot
run_no_batch_correct_atac
run_harmony_atac
run_bbknn_atac
run_totalvi
run_multivi
run_mofa
run_wnn
merge_integration
Task clustering
threads_high	threads_medium	threads_low
run_neighbors	run_clustering	plot_clustree
run_umap	collate_mdata	aggregate_clusters
find_markers	plot_cluster_umaps
	plot_markers
Task vis
threads_high		threads_low
plot_custom_markers_per_group		plot_metrics
plot_custom_markers_umap
plot_categorical_umaps
write_obs
plot_scatters
Task refmap
threads_high
run_refmap_scvi
run_scib_refmap
Task preprocess spatial
threads_high		threads_low
spatial_preprocess		filter_mudata
Task Spatial
threads_high		threads_low
load_mudata		plotQC_spatial