Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
pypi.org "proteins" keyword
cpiextract
CPIExtract is a software package to collect and harmonize small molecule and protein interactions.1 version - 167 downloads last month
rotamerconvolvemd 1.3.2
Analysis of spin label distances over structural ensembles5 versions - Latest release: almost 4 years ago - 1 dependent repositories - 25 downloads last month - 6 stars on GitHub - 2 maintainers
pdb-prep 0.1.0.0
pdb utils3 versions - Latest release: over 4 years ago - 1 dependent repositories - 5 downloads last month - 0 stars on GitHub - 2 maintainers
latticepy 0.1.4
A package for simulating molecules on a lattice.4 versions - Latest release: 9 months ago - 12 downloads last month - 2 stars on GitHub - 1 maintainer
dips-plus 1.1.0
The Enhanced Database of Interacting Protein Structures for Interface Prediction11 versions - Latest release: over 2 years ago - 1 dependent repositories - 38 downloads last month - 41 stars on GitHub - 1 maintainer
peptidy 0.0.1
A Python library that converts peptide sequences to matrices for machine learning.1 version - Latest release: 3 months ago - 27 downloads last month - 0 stars on GitHub - 1 maintainer
correlationplus 0.2.1
A Python package to calculate, visualize and analyze correlations of proteins.9 versions - Latest release: over 2 years ago - 2 dependent repositories - 86 downloads last month - 32 stars on GitHub - 2 maintainers
geometricus 0.3.0
Fast, structure-based, alignment-free protein embedding6 versions - Latest release: about 2 years ago - 1 dependent repositories - 30 downloads last month - 34 stars on GitHub - 1 maintainer
pykvfinder 0.6.13
Python package to detect and characterize cavities in biomolecular structures30 versions - Latest release: about 1 month ago - 1 dependent package - 1 dependent repositories - 1.01 thousand downloads last month - 19 stars on GitHub - 1 maintainer
Top 5.7% on pypi.org
197 versions - Latest release: about 1 month ago - 1 dependent package - 11 dependent repositories - 1.22 thousand downloads last month - 192 stars on GitHub - 2 maintainers
moleculekit 1.8.32
A molecule reading/writing and manipulation package.197 versions - Latest release: about 1 month ago - 1 dependent package - 11 dependent repositories - 1.22 thousand downloads last month - 192 stars on GitHub - 2 maintainers
protein-glm 0.0.2
Protein generative model with General Language Model PreTraining (GLM)1 version - Latest release: about 2 years ago - 1 dependent repositories - 4 downloads last month - 1 maintainer
geom3d 0.0
Geometric Modeling on 3D Data1 version - Latest release: 10 months ago - 23 downloads last month - 99 stars on GitHub - 1 maintainer
Top 2.8% on pypi.org
27 versions - Latest release: 7 months ago - 11 dependent packages - 22 dependent repositories - 4.44 thousand downloads last month - 1 maintainer
freesasa 2.2.1
Calculate solvent accessible surface areas of proteins27 versions - Latest release: 7 months ago - 11 dependent packages - 22 dependent repositories - 4.44 thousand downloads last month - 1 maintainer
pdbprocessor 0.1.1
Simple PDB file processing tool3 versions - Latest release: over 2 years ago - 1 dependent repositories - 9 downloads last month - 0 stars on GitHub - 1 maintainer
Top 5.5% on pypi.org
31 versions - Latest release: over 2 years ago - 1 dependent package - 7 dependent repositories - 312 downloads last month - 101 stars on GitHub - 1 maintainer
atomium 1.0.11 💰
A molecular modeller and file parser.31 versions - Latest release: over 2 years ago - 1 dependent package - 7 dependent repositories - 312 downloads last month - 101 stars on GitHub - 1 maintainer
chemw 0.3.5
Calculates the Molecular Weight, to the appropriate significant digits, from a string of an arbit...28 versions - Latest release: about 2 years ago - 1 dependent package - 7 dependent repositories - 309 downloads last month - 3 stars on GitHub - 1 maintainer
equiformer-pytorch 0.5.3
Equiformer - SE3/E3 Graph Attention Transformer for Molecules and Proteins55 versions - Latest release: 5 months ago - 260 downloads last month - 225 stars on GitHub - 1 maintainer
qiskit-xyz2pdb 0.1.2
A simple Python package to convert XYZ files from Qiskit output into PDB structures3 versions - Latest release: 12 months ago - 15 downloads last month - 0 stars on GitHub - 1 maintainer
protviewer 0.0.6
A web-based tool to visualize activities in proteins6 versions - Latest release: almost 2 years ago - 1 dependent repositories - 23 downloads last month - 0 stars on GitHub - 1 maintainer
geometric-vector-perceptron 0.0.14
Geometric Vector Perceptron - Pytorch11 versions - Latest release: about 3 years ago - 1 dependent repositories - 36 downloads last month - 72 stars on GitHub - 1 maintainer
pdbsearch 0.4.0 💰
A library for searching for PDB structures using the official APIs.4 versions - Latest release: almost 2 years ago - 1 dependent repositories - 29 downloads last month - 1 stars on GitHub - 1 maintainer
greedyfas 1.18.11
A tool to compare protein feature architectures95 versions - Latest release: 3 months ago - 1 dependent package - 1 dependent repositories - 834 downloads last month - 4 stars on GitHub - 1 maintainer
ddpm-proteins 0.0.11
Denoising Diffusion Probabilistic Models - for Proteins - Pytorch10 versions - Latest release: about 2 years ago - 1 dependent repositories - 45 downloads last month - 132 stars on GitHub - 1 maintainer
genotype_network 0.1.6 💰
A package for constructing and analyzing protein genotype networks in Python.3 versions - Latest release: almost 9 years ago - 2 dependent repositories - 18 downloads last month - 1 stars on GitHub - 1 maintainer
molecupy 1.1.0
A Python molecular modeller with PDB parsing.11 versions - Latest release: over 7 years ago - 1 dependent package - 2 dependent repositories - 67 downloads last month - 1 maintainer
pyprotein 0.0.2
package for protein IEP calculation etc.2 versions - Latest release: over 2 years ago - 1 dependent repositories - 7 downloads last month - 1 stars on GitHub - 1 maintainer
idpflex 0.1.8
Analysis of intrinsically disordered proteins by comparing MD simulations to Small Angle Scatteri...8 versions - Latest release: over 5 years ago - 1 dependent repositories - 23 downloads last month - 3 stars on GitHub - 1 maintainer
thppred 1.1
A tool for prediction of therapeutic peptides2 versions - Latest release: 10 months ago - 18 downloads last month - 2 stars on GitHub - 2 maintainers
clumps-ptm 0.0.6
CLUMPS-PTM driver gene discovery using 3D protein structure (Getz Lab).7 versions - Latest release: about 1 year ago - 29 downloads last month - 6 stars on GitHub - 1 maintainer
aaindex 1.1.2
A lightweight Python software package for accessing the data in the various AAIndex databases, wh...10 versions - Latest release: 7 months ago - 3 dependent packages - 1 dependent repositories - 311 downloads last month - 7 stars on GitHub - 1 maintainer
kif 0.3.4
Python package for MD simulation analysis10 versions - Latest release: 4 months ago - 21 downloads last month - 22 stars on GitHub - 1 maintainer
ec-number-prediction 0.0.4
ec_number_prediction5 versions - Latest release: 3 months ago - 33 downloads last month - 3 stars on GitHub - 1 maintainer
pyprot 0.1-alpha
Python Proteins1 version - Latest release: about 7 years ago - 1 dependent repositories - 5 downloads last month - 9 stars on GitHub - 1 maintainer
protlearn 0.0.3
A Python package for extracting protein sequence features3 versions - Latest release: about 3 years ago - 1 dependent repositories - 166 downloads last month - 58 stars on GitHub - 1 maintainer
candiy-lemon 0.3.0
Mine data from the PDB in minutes3 versions - Latest release: about 4 years ago - 1 dependent repositories - 37 downloads last month - 51 stars on GitHub - 1 maintainer
braid-mrf 1.0.9
Predicting protein complexes3 versions - Latest release: almost 2 years ago - 10 downloads last month - 2 stars on GitHub - 1 maintainer
autoclasswrapper 1.5.1
AutoClassWrapper: a Python wrapper for AutoClass C classification.27 versions - Latest release: almost 5 years ago - 1 dependent repositories - 96 downloads last month - 3 stars on GitHub - 1 maintainer
siteinterlock 0.0.1dev0
SiteInterlock tools for docking pose scoring1 version - Latest release: 10 months ago - 1 dependent repositories - 1 maintainer
farseernmr 2.0.0.dev0
A software suite for automatic treatment, analysis and plotting of large and multivariable datase...1 version - Latest release: over 4 years ago - 1 dependent repositories - 14 downloads last month - 10 stars on GitHub - 1 maintainer
b2btools 3.0.7
bio2Byte software suite to predict protein biophysical properties from their amino-acid sequences47 versions - Latest release: about 2 months ago - 419 downloads last month - 2 maintainers
mol2grid 0.1.4
Python package to insert a ligand in a 3D grid, created based on its respective receptor,...5 versions - Latest release: about 3 years ago - 1 dependent repositories - 96 downloads last month - 1 maintainer
bio2bel-uniprot 0.0.2
A package for downloading, parsing, storing, and serializing UniProt2 versions - Latest release: over 5 years ago - 1 dependent repositories - 39 downloads last month - 0 stars on GitHub - 1 maintainer
bio2bel-interpro 0.2.1
A package for converting InterPro to BEL3 versions - Latest release: about 5 years ago - 1 dependent repositories - 39 downloads last month - 0 stars on GitHub - 1 maintainer
biometal 0.1.0
Tools for dealing with metal binding sites.1 version - Latest release: about 6 years ago - 1 dependent repositories - 25 downloads last month - 1 maintainer
llama-index-readers-pdb 0.1.3
llama-index readers pdb integration5 versions - Latest release: 4 months ago - 30 downloads last month - 3,395 stars on GitHub - 1 maintainer
networker 0.2.3
a python package to generate and analyse protein similarity networks5 versions - Latest release: about 2 years ago - 1 dependent repositories - 12 downloads last month - 1 stars on GitHub - 1 maintainer
Top 9.4% on pypi.org
8 versions - Latest release: 3 months ago - 1 dependent package - 1 dependent repositories - 290 downloads last month - 798 stars on GitHub - 1 maintainer
molecularnodes 4.0.12
Toolbox for molecular animations with Blender and Geometry Nodes.8 versions - Latest release: 3 months ago - 1 dependent package - 1 dependent repositories - 290 downloads last month - 798 stars on GitHub - 1 maintainer
protein-metamorphisms-is 1.1.0
Comprehensive Python Module for Protein Data Management: Designed for streamlined integration and...1 version - Latest release: 3 months ago - 15 downloads last month - 2 stars on GitHub - 1 maintainer
Top 3.7% on pypi.org
19 versions - Latest release: 27 days ago - 6 dependent packages - 21 dependent repositories - 1.44 thousand downloads last month - 289 stars on GitHub - 1 maintainer
pypdb 2.4
A Python wrapper for the RCSB Protein Data Bank (PDB) API19 versions - Latest release: 27 days ago - 6 dependent packages - 21 dependent repositories - 1.44 thousand downloads last month - 289 stars on GitHub - 1 maintainer
bio2bel-kegg 0.3.0
A package for converting KEGG gene sets into BEL22 versions - Latest release: over 3 years ago - 1 dependent repositories - 213 downloads last month - 13 stars on GitHub - 2 maintainers
deepinteract 1.0.9
A geometric deep learning pipeline for predicting protein interface contacts.9 versions - Latest release: over 2 years ago - 1 dependent repositories - 41 downloads last month - 52 stars on GitHub - 1 maintainer
proteinworkshop 0.2.5 💰
Benchmarking framework for protein representation learning. Includes a large number of pre-traini...10 versions - Latest release: 5 months ago - 1 dependent repositories - 83 downloads last month - 146 stars on GitHub - 1 maintainer
serd 0.1.2
A Python package to detect solvent-exposed residues of a target biomolecule.3 versions - Latest release: over 1 year ago - 1 dependent repositories - 67 downloads last month - 4 stars on GitHub - 1 maintainer
conformine 0.0.1b14 removed
ConforMine, a predictor of conformational variability from amino acid sequence4 versions - Latest release: about 1 year ago - 73 downloads last month - 1 maintainer
rrmscorer 1.0.9
RRM-RNA score predictor5 versions - Latest release: 8 months ago - 26 downloads last month - 1 maintainer
seqprops 1.0.3
Sequential properties PyPI package4 versions - Latest release: over 1 year ago - 1 dependent repositories - 30 downloads last month - 1 stars on GitHub - 1 maintainer
progen-transformer 0.0.36
Protein Generation (ProGen)29 versions - Latest release: almost 3 years ago - 1 dependent repositories - 195 downloads last month - 104 stars on GitHub - 1 maintainer
molkitten 0.0.7
A molecule reading/writing and manipulation package.2 versions - Latest release: almost 2 years ago - 1 dependent repositories - 6 downloads last month - 192 stars on GitHub - 2 maintainers
bio2bel-expasy 0.2.0
A package for parsing and storing the ExPASy Enzyme Database2 versions - Latest release: over 5 years ago - 13 downloads last month - 0 stars on GitHub - 1 maintainer
pfamserver 0.0.15 removed
A python service to query the PFAM database through a JSON api.15 versions - Latest release: about 8 years ago - 2 dependent repositories - 3 stars on GitHub
Related Keywords
bioinformatics
19
chemistry
11
protein-structure
8
machine-learning
8
pdb
7
deep-learning
7
python
7
biology
7
deep learning
6
protein
6
structural-biology
6
molecules
5
biochemistry
5
artificial intelligence
5
structural biology
4
Systems Biology
4
Biological Expression Language
4
BEL
4
peptides
4
biological-expression-language
4
molecular-modeling
3
artificial-intelligence
3
molecule
3
equivariance
3
Networks Biology
3
systems-biology
3
transformers
3
networks-biology
3
networks
2
fasta
2
bio-informatics
2
enzymes
2
b2bTools
2
bio2byte
2
RNA
2
python-package
2
drug-discovery
2
molecular-simulation
2
protein-domains
2
attention mechanism
2
cheminformatics
2
uniprot
2
amino-acids
2
InterPro
2
protein-families
2
protein-folding
2
datasets
2
machine learning
2
analysis
2
protein-data-bank
2
MMCIF
2
proteomics
2
clustering
2
graph
2
PDB
2
visualization
2
protein-protein-interaction
2
biomolecules
2
nmr
1
biomolecular
1
ec-number
1
llms
1
sequence-alignment
1
alignment
1
profiling
1
score-matrix
1
structure-prediction
1
substitutions
1
amino acids
1
preprocessing
1
feature engineering
1
dimensionality reduction
1
feature-extraction
1
computational
1
structural
1
computational-chemistry
1
data-mining
1
markov-random-field
1
protein-complexes
1
autoclass
1
genes
1
molecular docking
1
ligands
1
Proteins
1
DNA
1
Structural Biology
1
Molecular Biology
1
Biochemistry
1
Nuclear Magnetic Resonance
1
dataset
1
lightning
1
pretraining
1
pytorch
1
biomolecular surface
1
solvent-exposed residues
1
graph-representations
1
graph-theory
1
solvent-accessibility
1
protein-conformation
1
conformational-variability
1