Official code of RTM-align: an improved RNA alignment tool with enhanced short sequence performance via post-standardization and fragment alignment.
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Updated
May 27, 2024 - C++
Official code of RTM-align: an improved RNA alignment tool with enhanced short sequence performance via post-standardization and fragment alignment.
Script to facilitate the making of horizontal scripts
gRNAde: Geometric Deep Learning for 3D RNA inverse design
Repo for the comradesOO R package. Designed for the analysis of RNA structural data obtained through RNA cross-linking and high-throughput sequencing experiments
Bioinformatics Data Structures & Algorithms [such as the Q-Gram Index, scoring alignments , rna-structure prediction, generating the BLAST-Ńeighborhood and more.]
PyMOL snippet library is written in Python for use in RStudio via the R reticulate package and the PyMOL Python API.
Software for predicting translation initiation rates in bacteria
Python snippets for PyMOL to be run in Jupyterlab via the jupyterlab-snippets-multimenus extension.
CryoREAD: a computational tool using deep learning to automatically build full DNA/RNA atomic structure from cryo-EM map.
🔧rna-tools: a toolbox to analyze sequences, structures and simulations of RNA (and more) used by RNA CASP, RNA PUZZLES, and me ;-) docs @ http://rna-tools.rtfd.io web @ http://rna-tools.online
Plotting engine for SEISMIC-RNA
RNA Pseudoknotted Secondary Structure Prediction Using Strict Hierarchical Folding
RNA Pseudoknotted Secondary Structure Prediction Using Relaxed Hierarchical Folding
A Kotlin DSL to create and plot RNA 2D structures. The drawing engine behind RNArtist to be used from the command line.
📦 Structstrings: implementation of Biostrings to work with dot bracket annotations
Analyse Nucleic Acids Structure and Simulations with baRNAba
Pre-processing pipeline for RNA crosslinking and High throughput sequencing data.
Are RNA 3D modeling transformers created equal?
RNAelem is a tool for learning secondary structural motifs from a set of RNA sequences.
Trainable PyTorch framework for developing protein, RNA and complex models.
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