Chris3Arcadia
Machine Learning Scientist at Alltrna, working on developing tRNA-based therapeutics.
AlltrnaCambridge, MA
Chris3Arcadia's Stars
A4Bio/RFold
The official implementation of the ICML'24 paper RFold: Deciphering RNA Secondary Structure Prediction: A Probabilistic K-Rook Matching Perspective..
LinearFold/LinearTurboFold
An end-to-end linear-time algorithm for structural alignment and conserved structure prediction of RNA homologs
marcovirgolin/gpg
Re-implementation of GP-GOMEA that attempts to be simpler to understand and use than the original.
rcsb/RNAView
RNAView identifies base pairs that are formed in nucleic acid structures and classifies them according to the system of Leontis and Westhof
zhuoyuzhang/RNAMake
RNAMake is a toolkit for designing and optimizing RNA 3D structure.
BGSU-RNA/FR3D
The official repository for "Find RNA 3D" (FR3D), a suite of programs for searching RNA 3D structures.
coleygroup/molpal
active learning for accelerated high-throughput virtual screening
eendebakpt/oapackage
Orthogonal Array package
Weeks-UNC/RNAvigate
Very flexible tools for plotting and analyzing all kinds of RNA structure data
microsoft/python-package-template
Template for Python Projects
Shark-NLP/DiffuSeq
[ICLR'23] DiffuSeq: Sequence to Sequence Text Generation with Diffusion Models
scverse/scanpy
Single-cell analysis in Python. Scales to >1M cells.
theislab/single-cell-best-practices
https://www.sc-best-practices.org
vtraag/leidenalg
Implementation of the Leiden algorithm for various quality functions to be used with igraph in Python.
facebookresearch/fairseq
Facebook AI Research Sequence-to-Sequence Toolkit written in Python.
ml4bio/RNA-FM
RNA foundation model
CSCfi/csc-user-guide
User guides, FAQs and tutorials related to CSC services
google/styleguide
Style guides for Google-originated open-source projects
snap-stanford/plato
BioPandas/biopandas
Working with molecular structures in pandas DataFrames
lightdock/lightdock
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
mmagnus/rna-tools
🔧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
r2dt-bio/R2DT
Visualise RNA secondary structure in consistent, reproducible and recognisable layouts
FabianFuchsML/se3-transformer-public
code for the SE3 Transformers paper: https://arxiv.org/abs/2006.10503
trevorstephens/gplearn
Genetic Programming in Python, with a scikit-learn inspired API
MilesCranmer/PySR
High-Performance Symbolic Regression in Python and Julia
donlnz/nonconformist
Python implementation of the conformal prediction framework.
clarafy/conformal-for-design
MolecularAI/deep-molecular-optimization
Molecular optimization by capturing chemist’s intuition using the Seq2Seq with attention and the Transformer
UCSC-LoweLab/tRNAscan-SE
A program for detection of tRNA genes