Plotting functions, frameshift detection and parsing of sequencing data from ribosome profiling experiments.
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Updated
Jul 19, 2018 - R
Plotting functions, frameshift detection and parsing of sequencing data from ribosome profiling experiments.
Transformers for ribosome density prediction
Snakemake pipeline for Ribo-Seq analysis
pilot pipeline that includes tool containerization
workshop2020: Basic and advanced bioinformatics for RegenerationNEXT
Tool for ribo-seq analysis. Most of the functionality moved to ribotricer (https://github.com/smithlabcode/ribotricer)
Mathematica notebook to compare methods of ML for ribosom density on mRNA prediction
Fast data processing for ribosome footpring profiling experiments from bam files
Bacterial-Riboseq: A Snakemake workflow for the analysis of riboseq data in bacteria.
Repo for the files needed for embedding mappingQC in the Galaxy environment
Ribo-seq focused Oligo Design pipeline for experiment-specific Depletion of Ribosomal RNAs
Website source code for analysis of ribosome / polysome profiling
Results and scripts for benchmarking ribotricer for translating ORF detection from Ribo-seq data
Comparison of the ability of open reading frames to recruit ribosomes within individual transcripts
machine learning algorithm for predicting ribosome densities at the gene level in different amino acid deprivation conditions
Workflow for Ribosome profiling data start and stop codon analysis.
Pipeline and scripts for the comparative analysis of ribosome profiling and matched RNA sequencing data between organs and across species.
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