ribosome-profiling
Here are 34 public repositories matching this topic...
Ribo-seq TIS Hunter, predicting translation initiation sites and ORFs using riboseq data
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- Python
A tool for accurately detecting actively translating ORFs from Ribo-seq data
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- Python
Pipeline for Ribosome Profiling Data
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- Groovy
A Package for Ribosome Profiling Data Analysis
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- R
We present HRIBO (High-throughput annotation by Ribo-seq), a workflow to enable reproducible and high-throughput analysis of bacterial Ribo-seq data. The workflow performs all required pre-processing steps and quality control. Importantly, HRIBO outputs annotation-independent ORF predictions based on two complementary prokaryotic-focused tools, …
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- Python
Tool for ribo-seq analysis. Most of the functionality moved to ribotricer (https://github.com/smithlabcode/ribotricer)
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- Python
uORF-Tools are a workflow and a collection of tools for the analysis of 'Upstream Open Reading Frames' (short uORFs)
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- Python
Riborex: Fast and flexible identification of differential translation from Ribo-seq data
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- R
A comprehensive pipeline for Ribo-seq data analysis
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- Shell
Results and scripts for benchmarking ribotricer for translating ORF detection from Ribo-seq data
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- Jupyter Notebook
Ribosome profiling mapping quality control tool
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- Python
Bacterial-Riboseq: A Snakemake workflow for the analysis of riboseq data in bacteria.
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- Python
Ribo-seq focused Oligo Design pipeline for experiment-specific Depletion of Ribosomal RNAs
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- Python
Ribo-DT is a snakemake pipeline to infer single-codon and codon-pair dwell times as well as gene flux from ribosome profiling data using generalized linear model (GLM) with negative binomial noise model (Gobet et al., PNAS, 2020).
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workshop2020: Basic and advanced bioinformatics for RegenerationNEXT
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Fast data processing for ribosome footpring profiling experiments from bam files
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- R
Comparing translation of open reading frames within individual transcripts
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- Python
Website source code for analysis of ribosome / polysome profiling
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- R
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