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Search results for c plus plus protein

58 search results found

Diamond ⭐ 900

Accelerated BLAST compatible local sequence aligner.

Hh Suite ⭐ 429

Remote protein homology detection suite.

Graphia ⭐ 209

A visualisation tool for the creation and analysis of graphs

DIA-NN - a universal automated software suite for DIA proteomics data analysis.

Application to assign secondary structure to proteins

Torchproteinlibrary ⭐ 107

PyTorch library of layers acting on protein representations

Fm Index ⭐ 71

FM-Index full-text index implementation using RRR Wavelet trees (libcds) and fast suffix sorting (libdivsufsort) including experimental results.

Genome mapping and spliced alignment of cDNA or amino acid sequences

Cath Tools ⭐ 51

Protein structure comparison tools such as SSAP and SNAP

RxDock is a fork of rDock. Note: the latest code is under development. Please do git checkout patched-rdock after clone if you want patched rDock. [IMPORTANT NOTE: pull requests should be posted on GitLab, this is a read-only source code mirror]

Megadock ⭐ 38

An ultra-high-performance protein-protein docking for heterogeneous supercomputers

Associative memory, Water mediated, Structure and Energy Model (AWSEM) protein simulation code

Fast, state-of-the-art ab initio prediction of protein secondary structure in 3 and 8 classes

Deltavinaxgb ⭐ 24

This is a machine-learning based protein-ligand scoring function.

Gromacs Ramd ⭐ 23

Random Acceleration Molecular Dynamics in GROMACS

A framework for rapidly mining structural information from the Protein Data Bank

ProCare: A Point Cloud Registration Approach to Align Protein Cavities

Pureclip ⭐ 20

Capturing protein-RNA interaction footprints from single-nucleotide CLIP-seq data

Sjaracne ⭐ 19

Scalable Tool for Gene Network Reverse Engineering

pLink is a software dedicated for the analysis of chemically cross-linked proteins or protein complexes using mass spectrometry.

Folding Atomata ⭐ 17

3D simulation viewer for Folding@home

Prospr is a universal toolbox for protein structure prediction within the HP-model. The Python package is based on a C++ core, which gives Prospr its high performance. The C++ core is made available as a separate zip file to facilitate high-performance computing applications. The package comes with many prediction algorithms and datasets to use.

Biocpp Core ⭐ 16

BioC++ core library (alphabet, meta, ranges)

Blockmodel ⭐ 16

Fitting stochastic blockmodels to graphs

An R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics

Maeparser ⭐ 15

maestro file parser

SWORD - a highly efficient protein database search

lib310 python package

State-of-the-art ab initio prediction of 1D protein structure annotations

Proteindf ⭐ 12

Canonical (Kohn-Sham) molecular orbital calculation software for large molecules such as protein

Fast, sensitive and accurate protein remote homology search on GPUs

Message Passing Neural Network ⭐ 11

Pytorch implementation of a message passing neural network with RNN sub-units

Mode Task ⭐ 10

PCA and normal mode analysis of proteins

Bayesian Active Learning for Optimization and Uncertainty Quantification with Applications in Protein Docking

kClust is a fast and sensitive clustering method for the clustering of protein sequences. It is able to cluster large protein databases down to 20-30% sequence identity. kClust generates a clustering where each cluster is represented by its longest sequence (representative sequence).

A method for identifying deleterious protein variation.

Srassembler ⭐ 9

Selective and Recursive local Assembler

[NeurIPS 2019] LOIS: Learning to Optimize In Swarms, guided by posterior estimation

My git clone of Heng Li's hcluster from http://sourceforge.net/p/treesoft/code/HEAD/tree/b

Protein structural disorder prediction

MIML-DML : Multi-Instance Multi-Label Distance Metric Learning for Genome-Wide Protein Function Prediction

The official repository for the cotranslational protein structure prediction software SAINT2

Evolutionary conservation estimation of residues or nucleotides

Protestar ⭐ 6

Protein Structure Archiver

Hgt Finder ⭐ 6

Program for finding horizontal gene transfer using BLAST result

Deepsimdef ⭐ 6

deepSimDEF offers single- and multi-channel deep learning models for functional analysis of genes using Gene Ontology annotations of gene products (RNAs, proteins, etc).

Tgt_package ⭐ 6

Generate A3M and TGT file from a given sequence in FASTA format.

MIFit is a cross-platform interactive graphics application for molecular modeling, fitting, and refinement of protein structures from x-ray crystallography.

Distributed Protein Sequence Aligner

Ppiprediction ⭐ 5

software used in the paper "Exploring the potential of 3D Zernike descriptors and SVM for protein–protein interface prediction"

Rotamer Interaction Field Python Libraries for Computational Protein Design

Pairwise alignment of membrane protein sequences

Historian ⭐ 5

Reconstruction of phylogenetic insertion-deletion histories

A simple yet powerful sequence clustering tool.

Pointsite ⭐ 5

PointSite: a point cloud segmentation tool for identification of protein ligand binding atoms

Graph2pro ⭐ 5

A graph-centric approach for metagenome-guided peptide identification in metaproteomics

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