Repositories list

• fr3d-python

  Public
  Python implementation of the FR3D software for searching and annotating RNA 3D structures

  pythondockerbioinformatics+ 2rna3d

  Python

  •10•17•7•5•Updated Nov 27, 2024Nov 27, 2024

• RNA-3D-correspondence

  Public
  Web application for comparing and visualising RNA 3D motifs across many 3D structures

  flaskstructure-alignmentrna-motifs

  Python

  •

  Apache License 2.0

  •0•0•0•0•Updated Nov 26, 2024Nov 26, 2024

• RNA-3D-Hub-core

  Public
  New resources for RNA Structural Bioinformatics: RNA 3D Motif Atlas, RNA Non-redundant Lists, RNA Structure Atlas (motif extraction and classification, database management)

  Python

  •1•6•1•4•Updated Nov 20, 2024Nov 20, 2024

• RNA-3D-Hub

  Public
  Resources for RNA Structural Bioinformatics: RNA 3D Motif Atlas, RNA Non-redundant Lists, RNA Structure Atlas

  phpbioinformatics3d-structure+ 2javascriptrna

  JavaScript

  •1•3•4•0•Updated Nov 13, 2024Nov 13, 2024

• JAR3D-Website

  Public
  JAR3D webserver for matching RNA loop sequences with RNA 3D motifs

  JavaScript

  •1•1•6•0•Updated Nov 1, 2024Nov 1, 2024

• JAR3D

  Public
  Java-based Alignment of RNA using 3D structure

  MATLAB

  •2•5•6•2•Updated Oct 4, 2024Oct 4, 2024

• FR3D

  Public
  The official repository for "Find RNA 3D" (FR3D), a suite of programs for searching RNA 3D structures.

  bioinformaticsrna3d+ 1matlab

  MATLAB

  •6•10•4•0•Updated Oct 3, 2024Oct 3, 2024

• RNA-Structure-utils

  Public
  Some utilities for dealing with RNA structure

  Python

  •2•7•3•0•Updated Oct 1, 2024Oct 1, 2024

• WebFR3D

  Public
  Web application for searching RNA 3D structures.

  JavaScript

  •1•1•8•0•Updated Apr 24, 2024Apr 24, 2024

• WebR3DAlign

  Public
  Web application for locally optimized, nucleotide to nucleotide pairwise alignments of RNA 3D structures

  HTML

  •

  Other

  •1•1•8•0•Updated Apr 20, 2023Apr 20, 2023

• ribosome-functional-annotation

  Public
  Python code for inferring ribosomal chain, tRNA occupancy, and bound protein factors/ligands

  0•0•0•0•Updated Sep 9, 2022Sep 9, 2022

• R3DAlign

  Public
  The official repository for R3DAlign, a program for aligning RNA 3D structures.

  MATLAB

  •1•2•0•0•Updated Jun 27, 2022Jun 27, 2022

• alignment-server-dev

  Public
  Development of "alignment server" in conjunction with the Gutell Lab at UT-Austin.

  Python

  •1•1•0•0•Updated Jan 15, 2019Jan 15, 2019

• RNA-base-triples

  Public
  Matlab code to model, find, and count RNA base triples

  1•0•0•0•Updated Mar 3, 2017Mar 3, 2017

• ConformationalChange

  Public
  Matlab programs to detect local and large-scale conformational changes in RNA 3D structures

  MATLAB

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Aug 26, 2015Aug 26, 2015

• rna-protein-stacking

  Public
  A place to put code for displaying RNA protein interaction data

  1•0•0•0•Updated Jun 8, 2015Jun 8, 2015

• 3D-structure-coloring

  Public
  Methods and data files to color RNA 3D structures

  Python

  •1•0•0•0•Updated Jun 3, 2015Jun 3, 2015

• rnao

  Public
  Controlled vocabulary pertaining to RNA function and based on RNA sequences, secondary and three-dimensional structures

  Web Ontology Language

  •1•2•6•0•Updated Apr 15, 2015Apr 15, 2015

• heatmap

  Public
  Basepair Catalog implemented on NDB

  JavaScript

  •1•1•0•0•Updated Jun 2, 2014Jun 2, 2014

• loop-extraction-benchmark

  Public
  JavaScript

  •1•0•0•0•Updated Jan 8, 2013Jan 8, 2013

• base-stacking-catalog

  Public
  RNA Base-stacking Catalog

  JavaScript

  •1•0•0•0•Updated Jan 3, 2013Jan 3, 2013

• UnitIdTranslation

  Public
  Translate unit Ids from old to new formats

  Python

  •1•1•0•0•Updated Dec 3, 2012Dec 3, 2012

• FR3D_history

  Public
  This repository contains all archived versions of FR3D committed to one repository. Has only historical interest. Not maintained.

  MATLAB

  •1•1•0•0•Updated Jan 31, 2012Jan 31, 2012