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1. snoBIRD snoBIRD Public

   SnoBIRD (BERT-based Identification and Refinement of C/D box snoRNAs) is a Snakemake-based tool which predicts C/D box snoRNA genes (either expressed or pseudogenes) contained in any genomic sequence.

   Python 4 1

2. TGIRT_Seq_pipeline TGIRT_Seq_pipeline Public

   Snakemake workflow to download the TGIRT-Seq datasets from GEO from multiple species and analyze them using a custom pipeline. Tested with Snakemake v.7.18.2.

   Python 1

3. Abundance_determinants_snoRNA Abundance_determinants_snoRNA Public

   Pipeline to identify the abundance determinants of human snoRNAs.

   Python

4. S_pombe_RNA_Seq S_pombe_RNA_Seq Public

   Pipeline used to analyze RNA-Seq data from a sla1 pulldown in Schizosaccharomyces pombe under normal conditions or various stresses. Tested with Snakemake v6.0.5.

   Python

5. t_thermophila_RNA_Seq t_thermophila_RNA_Seq Public

   Pipeline used to analyze RNA-Seq data from a new La protein pulldown of RNA in Tetrahymena thermophila. Tested with Snakemake v6.0.5.

   Python

6. RPG_pseudogenes_RNA_Seq RPG_pseudogenes_RNA_Seq Public

   RNA-Seq pipeline to compute the differential expression between the RNAs bound either by WT ribosomes or ribosomes that contain pseudogene ribosomal proteins.

   Python