seandavi/awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

Size: 1.43 MB - Last synced at: 4 days ago - Pushed at: 12 days ago - Stars: 3,358 - Forks: 1,016

nsalomonis/altanalyze

AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-use precompiled graphical user-interface versions available from our website.

Language: Python - Size: 264 MB - Last synced at: 25 days ago - Pushed at: almost 3 years ago - Stars: 103 - Forks: 31

jhsiao999/peco

Predict cell cycle phase in a continuum from single-cell RNA-seq data

Language: R - Size: 74 MB - Last synced at: 19 days ago - Pushed at: over 4 years ago - Stars: 12 - Forks: 4

chan-labsite/PCNAdeep

Track single cells and profile the cell cycle with PCNA fluorescence images

Language: Python - Size: 19 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 9 - Forks: 2

Population-Transcriptomics/Cell-Cycle-on-C1

Single-cell transcriptome analysis by fluorescence labeling

Language: HTML - Size: 13.6 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 3 - Forks: 5

tallulandrews/CycleMix

Language: R - Size: 1.81 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 2 - Forks: 0

amoghpj/cell-cycle-models

What's all this talk about cell cycle models?

Language: Python - Size: 354 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 2 - Forks: 1

SPARCED/SPARCED

Mechanistic Pan-Cancer Signaling Model

Language: Jupyter Notebook - Size: 76.9 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 4

hanjunlee21/Lee-et-al-2023

RB represses cohesin-dependent loop formation and safeguards E2F-independent transcription

Language: Jupyter Notebook - Size: 70.4 MB - Last synced at: about 2 months ago - Pushed at: 7 months ago - Stars: 1 - Forks: 0

meyer-lab/DrugResponseModel.jl

This is to show oscillations in the number of cells in G1 and in G2 phase of cell cycle.

Language: Jupyter Notebook - Size: 59.4 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 1 - Forks: 0

SilasBoyeNissen/TranscriptionalHeterogeneityAndCellCycleRegulationAsCentralDeterminantsOfPrimitiveEndodermPriming

"Transcriptional Heterogeneity and Cell Cycle Regulation as Central Determinants of Primitive Endoderm Priming" published in eLife (2022)

Language: MATLAB - Size: 294 MB - Last synced at: 19 days ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0

Jeff-Gui/PCNAdeep

Track single-cells and profile the cell cycle with PCNA images.

Language: Python - Size: 74.5 MB - Last synced at: 10 months ago - Pushed at: almost 3 years ago - Stars: 1 - Forks: 0

dmattek/cell-cycle-1d

Interactive cell cycle analysis

Language: R - Size: 542 KB - Last synced at: 12 months ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0

JRaviLab/start-bycc

Modeling the START transition in the budding yeast cell cycle

Size: 730 KB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0

YangLab-um/interactive-cell-cycle

An interactive web application for exploring cell cycle models

Language: Python - Size: 25.4 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

barberislab/ChIP-exo_Fkh1_Fkh2

ChIP-exo analysis highlights Fkh1 and Fkh2 transcription factors as hubs that integrate multi-scale networks in budding yeast | T.D.G.A. Mondeel, P. Holland, J. Nielsen and M. Barberis | 2019 | https://doi.org/10.1093/nar/gkz603

Language: HTML - Size: 174 MB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 0 - Forks: 0

desszi6/cell_cycle_circadian_clock_wnt_model

Bachelor thesis project : Simulation of the WNT protein's interations with the circadian clock-cell cycle system

Language: MATLAB - Size: 4.88 KB - Last synced at: about 2 years ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 0

Mainakdeb/project-jurkat

PyTorch + images of human T lymphocyte cells (Jurkat cells)

Language: Jupyter Notebook - Size: 10 MB - Last synced at: about 2 years ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 0

barberislab/Autonomous_minimal_cell_cycle_oscillator

Clb3-centered regulations are recurrent across distinct parameter regions in minimal autonomous cell cycle oscillator designs | Thierry D.G.A. Mondeel, Oleksandr Ivanov, Hans V. Westerhoff, Wolfram Liebermeister and Matteo Barberis | NPJ Syst. Biol. Appl. (2020) | https://doi.org/10.1038/s41540-020-0125-0

Language: Jupyter Notebook - Size: 3.64 MB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0

okadalabipr/Imoto2019

Imoto, H. & Okada, M. Signal-dependent regulation of early-response genes and cell cycle: a quantitative view. Curr. Opin. Syst. Biol. 15, 100–108 (2019).

Language: Julia - Size: 53.7 KB - Last synced at: about 2 years ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0

Onkobioloogia/rakutsykliloeng

Molekulaarse rakubioloogia kursuse rakutsükli loeng

Size: 18.3 MB - Last synced at: over 1 year ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 0