diff --git a/small_RNA-seq/small_RNA-seq.snakefile b/small_RNA-seq/small_RNA-seq.snakefile index 65b698120e6ff3db162efe748701db3128b808d2..310aeb34b3708afe1a4db6332bee07748f654690 100644 --- a/small_RNA-seq/small_RNA-seq.snakefile +++ b/small_RNA-seq/small_RNA-seq.snakefile @@ -948,9 +948,13 @@ rule all: # "all_{small_type}_{mapping_type}_{biotype}_{orientation}_transcript_counts.txt"), # small_type=READ_TYPES_FOR_MAPPING, mapping_type=[f"on_{genome}"], biotype=set(COUNT_BIOTYPES + ANNOT_BIOTYPES), orientation=ORIENTATIONS), # Note (14/02/2022): no pi here: Why ? -> Let's add pi while we're adding missing tRF + #expand( + # OPJ(annot_counts_dir, f"all_{size_selected}_on_{genome}", "{small_type}_RPM.txt"), + # small_type=["pi", "mi", "tRF", *SI_TYPES, *SIU_TYPES, f"pimi{SI_MIN}G", f"pimi{SI_MIN}GtRF"]), expand( - OPJ(annot_counts_dir, f"all_{size_selected}_on_{genome}", "{small_type}_RPM.txt"), - small_type=["pi", "mi", "tRF", *SI_TYPES, *SIU_TYPES, f"pimi{SI_MIN}G", f"pimi{SI_MIN}GtRF"]), + OPJ(annot_counts_dir, f"all_{size_selected}_on_{genome}", "{small_type}_RPM_by_{norm}.txt"), + small_type=["pi", "mi", "tRF", *SI_TYPES, *SIU_TYPES, f"pimi{SI_MIN}G", f"pimi{SI_MIN}GtRF"], + norm=RPM_NORMS), # piRNA and satel_siu raise ValueError: `dataset` input should have multiple elements when plotting # simrep_siu raise TypeError: Empty 'DataFrame': no numeric data to plot expand(