Comparing the translatability of open reading frames within individual transcripts

An application for analysis of 5′ endpoints distribution in RNA sequencing datasets. This is particularly useful for techniques that capture 5′ monophosphorylated RNAs, such as 5PSeq, PARE-seq or GMUC. It may also be useful for ribosome profiling datasets and alike.The main workflow of fivepseq is intended for downstream analysis of alignment fi…

Cellular economy models for simulation of biological optimizaton problems

An alignment and analysis pipeline for Ribosome Profiling and RNA-seq data

A tool for accurately detecting actively translating ORFs from Ribo-seq data

Implementation of a Ribosome in Java.

neovim yank and paste manager

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).

Pipeline for Ribosome Profiling Data

A set of easy-to-use functions to analyze end read count data of RiboMethSeq (RNA 2'Ome)

Nextflow pipeline dedicated to RiboMethSeq data processing

Human and mouse genome assemblies customized for rDNA mapping

Pipeline for small peptide discovery

MATLAB scripts to analyze polysomes formed by ribosomes based on their coordinates and rotations.

Programas usados em BioInformática

Ribosome profiling mapping quality control tool

Fast data processing for ribosome footpring profiling experiments from bam files

Sublime Text plugin for the Ribosome code generator