HasiHays

HasiHays's Stars

• glotzerlab/hoomd-blue

  Molecular dynamics and Monte Carlo soft matter simulation on GPUs.

  Language:C++32124915126

• franciscozorrilla/metaGEM

  :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

  Language:Python176511838

• sorgerlab/indra

  INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.

  Language:Python1672346063

• icbi-lab/infercnvpy

  Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.

  Language:Python12335027

• rezacsedu/XAI-for-bioinformatics

  Explainable AI for Bioinformatics

  Language:Jupyter Notebook1084016

• saeyslab/multinichenetr

  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data

  Language:HTML9637614

• saezlab/visium_heart

  Spatial transcriptomics of heart tissue

  Language:Jupyter Notebook6721333

• biomass-dev/biomass

  A Python Framework for Modeling and Analysis of Signaling Systems

  Language:Python2428112

• SunXQlab/scMLnet

  Single-cell RNA-seq data-based inference of multilayer inter- and intra-cellular signaling networks

  Language:R21158

• KULL-Centre/_2022_functional-sites-cagiada

  Language:Jupyter Notebook19133

• ZornLab/Single-cell-transcriptomics-reveals-a-signaling-roadmap-coordinating-endoderm-and-mesoderm-lineage

  Code and Data Availability for Single cell transcriptomics reveals a signaling roadmap coordinating endoderm and mesoderm lineage diversification during foregut organogenesis

  Language:R9218

• groponp/CompBiology-Biophysics

  It's an general repository containing multiple script for several task into computational biophysics or biology.

  Language:Python86

• sysbio-curie/DeDaL

  DeDaL (Data-Driven network Layout) is a Cytoscape 3.0 app developed by the Computational Systems Biology of Cancer group in Bioinformatics Laboratory of Institut Curie (Paris).

  Language:Java4605

• HasiHays/awesome-biology

  Curated (meta)list of resources for Biology.

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• HasiHays/Catalyst.jl

  Chemical reaction network and systems biology interface for scientific machine learning (SciML). High performance, GPU-parallelized, and O(1) solvers in open source software.

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• HasiHays/cobrapy

  COBRApy is a package for constraint-based modeling of metabolic networks.

  1

• HasiHays/deep-review

  A collaboratively written review paper on deep learning, genomics, and precision medicine

  1

• HasiHays/diffusion-simulation

  Language:Python1

• HasiHays/ecell4_base

  An integrated software environment for multi-algorithm, multi-timescale, multi-spatial-representation simulation of various cellular phenomena

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• HasiHays/gillespie-algorithm-simulation

  Language:Jupyter Notebook1

• HasiHays/hoomd-blue

  Molecular dynamics and Monte Carlo soft matter simulation on GPUs.

  1

• HasiHays/liana-py

  LIANA+: an all-in-one framework for cell-cell communication

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• HasiHays/Mathematical-Biology-Books

  "Our world is built on biology and once we begin to understand it, it then becomes a technology." ― Ryan Bethencourt

  1

• HasiHays/metaGEM

  :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

  1

• HasiHays/multinichenetr

  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data

  1

• HasiHays/Netflux

  Netflux is a user-friendly software for developing dynamic computational models of biological networks. Models are created in Excel format and then simulated using the Netflux graphical interface. No computer programming is required. Netflux is written in MATLAB, with binary versions available for Windows and MacOS.

  1

• HasiHays/pysb

  Python framework for Systems Biology modeling

  1

• HasiHays/scMLnet

  Single-cell RNA-seq data-based inference of multilayer inter- and intra-cellular signaling networks

  1

• HasiHays/Single-cell-transcriptomics-reveals-a-signaling-roadmap-coordinating-endoderm-and-mesoderm-lineage

  Code and Data Availability for Single cell transcriptomics reveals a signaling roadmap coordinating endoderm and mesoderm lineage diversification during foregut organogenesis

  1

• HasiHays/Systems_Biology_Textbook

  A GitHub repository holding chapters of the book – “A Textbook on Computational Systems Biology.” Author: Biplab Bose, Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Assam, India, PIN- 781039. All the contents of this repository are provided under the Creative Commons License “CC BY-NC-ND 4.0”

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