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ribosome

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ribotricer

smithlabcode /ribotricer

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

bioinformatics translation orfs ribosome-profiling ribosome ribosome-profiling-data ribo-seq translation-regulation

UpdatedJan 30, 2025
Python

ribosomeprofiling /riboflow

Pipeline for Ribosome Profiling Data

translation pipeline ribosome-profiling ribosome ribosome-profiling-data

UpdatedJul 5, 2023
Groovy

XPRESSyourself /XPRESSpipe

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

bioinformatics rna-seq pipeline genomics ngs profiling riboseq ribosome

UpdatedJul 2, 2024
Python

RibosomeCRCL /rRMSAnalyzer

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

rna-seq r ribosome ribomethseq 2-ome

UpdatedMar 13, 2025
R

vikramparalkar /rDNA-Mapping-Genomes

Human and mouse genome assemblies customized for rDNA mapping

epigenetics genome-annotation rdna transcription genome-assembly ribosome repetitive-dna genome-visualization

UpdatedMar 7, 2025

fivepseq

lilit-nersisyan /fivepseq

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…

rna decay ribosome 5pseq

UpdatedDec 9, 2024
HTML

Biobix /mQC

Ribosome profiling mapping quality control tool

python quality-control mapping perl ribosome-profiling pyplot ribosome mappingqc mqc

UpdatedApr 20, 2021
Python

RibosomeCRCL /ribomethseq-nf

Nextflow pipeline dedicated to RiboMethSeq data processing

rna-seq pipeline nextflow ribosome ribomethseq 2-ome

UpdatedJun 12, 2023
Nextflow

m-jahn /cell-economy-models

Cellular economy models for simulation of biological optimizaton problems

computational-biology resource-allocation ribosome python-models python-gekko cellular-economy growth-law

UpdatedOct 22, 2024
Python

cgob /codonDT_snakemake

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).

bioinformatics ribosome-profiling generalized-linear-models ribosome

UpdatedNov 1, 2023
R

tek /uracil

neovim yank and paste manager

haskell neovim paste history nvim-hs ribosome yank

UpdatedFeb 7, 2024
Haskell

noepozzan /small-peptide-pipeline

Pipeline for small peptide discovery

workflow bioinformatics pipeline nextflow profiling riboseq peptides ribosome

UpdatedDec 20, 2022
Nextflow

xueliang4906 /polysome_detect

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

matlab ribosome cryo-et polysome

UpdatedJun 11, 2022
MATLAB

celalp /ribofootprintR

Fast data processing for ribosome footpring profiling experiments from bam files

ngs profiling ribosome-profiling ribosome

UpdatedFeb 5, 2019
R

MateusjsSilva /ribosome-java

Implementation of a Ribosome in Java.

java bioinformatics ribosome

UpdatedFeb 23, 2024
Java

JesseTG /ribosome-sublime

Sublime Text plugin for the Ribosome code generator

sublime-text sublime-text-3 sublime-package sublime-syntax ribosome

UpdatedApr 14, 2018

joaomota59 /bioInformatica

Programas usados em BioInformática

needleman-wunsch transcription debruijn bioinformatics-scripts needleman-wunsch-algorithm needleman debruijn-graph ribosome bioinformatica

UpdatedNov 16, 2021
Jupyter Notebook

riboxyz

rtviii /riboxyz

types structural-biology pdb hidden-markov-model mmcif cryoem ribosome

UpdatedMar 15, 2025
HTML

BIONF /PhyloRBF

visualization r phylogenetics ribosome-profiling ribosome

UpdatedFeb 19, 2024
R

lcscs12345 /riboss

Comparing translation of open reading frames within individual transcripts

rna-seq translation ribosome-profiling isoform-quantification ribosome splice-junctions uorfs ribo-seq

UpdatedMar 18, 2025
Python

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