Top 17 computational-biology Open-Source Projects

• cs-video-courses

  58 64,846 7.0

  List of Computer Science courses with video lectures.

Project mention: Need advice | /r/PAK | 2023-07-12

course Computer science is very wast field the fundamental remains same, learn basic fundamentals, data structures, concepts of object oriented programming.

• graphein

  2 978 7.8 Jupyter Notebook

  Protein Graph Library

• InfluxDB

  www.influxdata.com sponsored

  Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.

  

• 3Dmol.js

  1 754 9.2 Jupyter Notebook

  WebGL accelerated JavaScript molecular graphics library

  

• opensim-core

  1 735 9.9 C++

  SimTK OpenSim C++ libraries and command-line applications, and Java/Python wrapping.

  

• awesome-computational-neuroscience

  3 658 10.0

  A list of schools and researchers in computational neuroscience

• OpenChem

  1 657 0.0 Python

  OpenChem: Deep Learning toolkit for Computational Chemistry and Drug Design Research

Project mention: Computational Chemistry Using PyTorch | news.ycombinator.com | 2023-07-22

• poly

  24 649 8.2 Go

  A Go package for engineering organisms.

  

Project mention: Looking for an Open Source project to participate in for Google Summer of Code | /r/golang | 2023-12-10

• WorkOS

  workos.com sponsored

  The modern identity platform for B2B SaaS. The APIs are flexible and easy-to-use, supporting authentication, user identity, and complex enterprise features like SSO and SCIM provisioning.

  

• dash-cytoscape

  1 571 9.3 Python

  Interactive network visualization in Python and Dash, powered by Cytoscape.js

  

• biotite

  2 557 9.0 Python

  A comprehensive library for computational molecular biology

  

• dance

  1 323 8.8 Python

  DANCE: a deep learning library and benchmark platform for single-cell analysis (by OmicsML)

  

• kent

  12 205 9.9 C

  UCSC Genome Browser source tree. Stable branch: "beta".

  

• Clairvoyante

  1 172 0.0 Python

  Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing

• metaGEM

  14 165 6.3 Python

  :gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data

Project mention: Metagenomic samples analysis: From taxonomic classification to reads mapping | /r/bioinformatics | 2023-06-09

Maybe this workflow will be interesting to you: it assembles metagenomes, generates bins, and also creates metabolic models for predicting interactions within microbiomes 💎 https://github.com/franciscozorrilla/metaGEM

• PteraSoftware

  3 154 4.0 Python

  Ptera Software is a fast, easy-to-use, and open-source software package for analyzing flapping-wing flight.

• CompBioDatasetsForMachineLearning

  2 135 4.1

  A Curated List of Computational Biology Datasets Suitable for Machine Learning

• CNApy

  1 41 6.8 Python

  An integrated visual environment for metabolic modeling with common methods such as FBA, FVA and Elementary Flux Modes, and advanced features such as thermodynamic methods, extended Minimal Cut Sets, OptKnock, RobustKnock, OptCouple and more!

  

• blog

  1 3 0.0

  A collection of detailed notes and random thoughts. (by jlikhuva)

• SaaSHub

  www.saashub.com sponsored

  SaaSHub - Software Alternatives and Reviews. SaaSHub helps you find the best software and product alternatives

  

computational-biology related posts

• Metagenomic samples analysis: From taxonomic classification to reads mapping
  1 project | /r/bioinformatics | 9 Jun 2023
• Is Developing a Multi-omics Pipeline Feasable for a Masters Thesis?
  1 project | /r/bioinformatics | 19 May 2023
• Favorite Pipeline/Methods Figure
  4 projects | /r/bioinformatics | 24 Feb 2023
• Why bother reconstructing MAGs ?
  2 projects | /r/bioinformatics | 11 Jan 2023
• How would I respond to this evolution-denier?
  1 project | /r/DebateEvolution | 4 Jan 2023
• Regarding 200000+ ERVs that are shared between humans and chimps
  2 projects | /r/DebateEvolution | 5 Aug 2022
• MetaQuast for assembling samples from complex communities
  1 project | /r/bioinformatics | 27 Jul 2022
• A note from our sponsor - InfluxDB
  www.influxdata.com | 28 Apr 2024

  Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality. Learn more →

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