mechealeth

mechealeth's Stars

• rcedgar/muscle

  Multiple sequence and structure alignment with top benchmark scores scalable to thousands of sequences. Generates replicate alignments, enabling assessment of downstream analyses such as trees and predicted structures.

  Language:C++22423

• psipred/s4pred

  A tool for accurate prediction of a protein's secondary structure from only it's amino acid sequence

  Language:Python499

• flyark/AFM-LIS

  Local Interaction Score (LIS) Calculation from AlphaFold-Multimer (Enhanced Protein-Protein Interaction Discovery via AlphaFold-Multimer)

  Language:Jupyter Notebook476

• RexGRM/Alz-IDProteinExplorer

  Visualization, simulation, manipulation of Intrinsically disorder proteins with Gibbs sampling

  Language:Python40261

• ShintaroMinami/PyDSSP

  A simplified implementation of DSSP algorithm for PyTorch and NumPy

  Language:Python759

• PDB-REDO/dssp

  Application to assign secondary structure to proteins

  Language:C++17419

• aqlaboratory/proteinnet

  Standardized data set for machine learning of protein structure

  Language:Python873132

• ncbi/SSDraw

  Language:Jupyter Notebook8210

• mshinn23/nardini

  Language:Python5

• RosettaCommons/rosetta

  The Rosetta Bio-macromolecule modeling package.

  Language:C++18870

• facebookresearch/esm

  Evolutionary Scale Modeling (esm): Pretrained language models for proteins

  Language:Python3.3k659

• google-deepmind/alphamissense

  Language:Python53169

• kyegomez/AlphaFold3

  Implementation of Alpha Fold 3 from the paper: "Accurate structure prediction of biomolecular interactions with AlphaFold3" in PyTorch

  Language:Python762103

• haiyuan-yu-lab/PIONEER

  Language:Python202

• kharchenkolab/scITD

  Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition

  Language:R542

• KosinskiLab/AlphaPulldown

  Language:Python23348

• YoshitakaMo/localcolabfold

  ColabFold on your local PC

  Language:Python627140

• ryanlayer/giggle

  Interval data structure

  Language:C22729

• google-deepmind/alphafold

  Open source code for AlphaFold 2.

  Language:Python13k2.3k

• catavallejos/BASiCS

  BASiCS: Bayesian Analysis of Single-Cell Sequencing Data. This is an unstable experimental version. Please see http://bioconductor.org/packages/BASiCS/ for the official release version

  Language:R8417

• pytorch/pytorch

  Tensors and Dynamic neural networks in Python with strong GPU acceleration

  Language:Python85.3k23k

• DieStok/Basic-Machine-Learning-for-Bioinformatics

  ML course materials for bioinformatics students following the Basic Machine Learning for Bioinformatics course at Utrecht University. Course created and taught by Dieter Stoker.

  Language:Jupyter Notebook61

• ManchesterBioinference/burstInfer

  Using a dynamic memory-adjusted Hidden Markov Model to infer global and single-cell transcriptional parameters

  Language:Python51

• nf-core/cageseq

  CAGE-sequencing analysis pipeline with trimming, alignment and counting of CAGE tags.

  Language:Nextflow1112

• icbi-lab/luca

  Single-cell Lung Cancer Atlas with 1.2M cells

  Language:Python5817

• Benson-Genomics-Lab/TRF

  Tandem Repeats Finder: a program to analyze DNA sequences

  Language:C15729

• karthikj89/humanpdac

  single cell analysis of treatment naive and treated human PDAC

  Language:Jupyter Notebook2110

• shizhuoxing/scISA-Tools

  single-cell-Isoform-Sequencing-Analysis-Tools: New and powerful tools brings single-cell RNA sequencing to the Isoform level and single molecule resolution.

  Language:Perl231

• cellgeni/STARsolo

  wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq

  Language:Shell456

• kundajelab/atac_dnase_pipelines

  ATAC-seq and DNase-seq processing pipeline

  Language:Python16479