Transcriptome, metaranscriptome, and translatome data for RIBOSS

This record contains long- and short-read sequence alignment files to test RIBOSS. To reproduce the results in styphimurium.ipynb, clone the RIBOSS_paper repository, and create a conda environment according to README. Create new directories mkdir -p doc/ doc/metatranscriptome doc/styphimurium/ doc/styphimurium/rnaseq doc/styphimurium/riboseq. Download the alignment files for S. enterica transcriptome and metatranscriptome (a cocktail of S. enterica serovar Enteritidis, Escherichia coli O157:H7, and Listeria monocytogenes). SRR11215003.bam and SRR11215004.bam: Nanopore long-read direct RNA-seq. Download and mv SRR24781620.bam doc/metatranscriptome. SRR11215663.bam and SRR11215664.bam: Illumina short-read RNA-seq. Download and mv SRR24781620.bam doc/metatranscriptome. SRR24781620.bam: Nanopore long-read cDNA sequencing. Download and mv SRR24781620.bam doc/styphimurium/rnaseq. Download S. enterica serovar Typhimurium ribosome profiling data and mv ERR913094*.out.bam doc/styphimurium/riboseq. ERR9130942Aligned.out.bam: RNase I, 1000 U. ERR9130943Aligned.out.bam: RNase I, 500 U. ERR9130946Aligned.out.bam: matched RNA-seq.