NucleoSeeker - Precision filtering of RNA databases to curate high-quality datasets
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Updated
Aug 16, 2024 - Python
NucleoSeeker - Precision filtering of RNA databases to curate high-quality datasets
RNA/DNA/PMO Pseudoknotted Secondary Structure Interaction Prediction Using Relaxed Hierarchical Folding
RNA Pseudoknotted Secondary Structure Prediction Using Strict Hierarchical Folding
Software for predicting translation initiation rates in bacteria
Repo for the comradesOO R package. Designed for the analysis of RNA structural data obtained through RNA cross-linking and high-throughput sequencing experiments
[ICPR 2024] Knowledge from Large-Scale Protein Contact Prediction Models can be Transferred to the Data-Scarce RNA Contact Prediction Task
🔧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
RNAelem is a tool for learning secondary structural motifs from a set of RNA sequences.
CryoREAD: a computational tool using deep learning to automatically build full DNA/RNA atomic structure from cryo-EM map.
RNAblueprint library for uniform sampling of RNA sequences given structural and sequence constraints
The landscape of RNA 3D structure modeling with transformer networks
RNA Pseudoknotted Secondary Structure Prediction Using Relaxed Hierarchical Folding
CONTRAfold-SE - Learning RNA secondary structure (only) from structure probing data
gRNAde: Geometric Deep Learning for 3D RNA inverse design
Plotting engine for SEISMIC-RNA
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
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.
Python snippets for PyMOL to be run in Jupyterlab via the jupyterlab-snippets-multimenus extension.
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