organoids

There are 0 repository under organoids topic.

• quadbio / VoxHunt

  VoxHunt: Resolving human brain organoid heterogeneity through single-cell genomic comparison to spatial brain maps

  organoidssingle-cell
  Language:HTML 36
• OrgaQuant

  TKassis / OrgaQuant

  Organoid Localization and Quantification Using Deep Convolutional Neural Networks

  organoidskeras-retinanetbiologystemcells
  Language:Python 25

• jn-goe / gruffi

  Granular Functional Filtering (Gruffi) to isolate stressed cells

  scrna-seq-analysisfiltering-algorithmgeneontologyorganoids
  Language:R 11

• TAPE-Lab / CyGNAL

  Pipeline for analysing and visualising CyTOF datasets, with a focus on PTM signalling networks.

  cytofcell-communication-labcytobankdata-analysisscprepemddremipcaumaptape-laborganoidssignallingptmptmsmasscytometryfcsvisualizationvisualisation
  Language:Python 7

• lazappi / phd-thesis-analysis

  Code for the analysis chapter of my PhD thesis looking at kidney organoid scRNA-seq data

  phd-thesisanalysisanalysis-websitekidneyorganoidssingle-cellrna-seqsingle-cell-rna-seqscrna-seq
  Language:R 6

• cancersysbio / gastric_organoid_evolution

  Deterministic evolution and stringent selection during pre-neoplasia

  cancer-genomicsgastricgenomicsorganoidstumor-evolution
  Language:HTML 5

• mzabolocki / fusion_org_ephys

  Electrophysiology analysis in ventral midbrain-striatal-cortical organoids (MISCOs) pre- and post- optogenetic stimulation.

  calcium-imagingextracellular-recordingsmulti-unitoptogeneticsorganoidsprobessignal-processing
  Language:Jupyter Notebook 4

• Unlimited-Research-Cooperative / Biological-Silicon-Hybrid-Computing

  Human brain organoids connected to silicon computers

  brain-on-a-chiporganoidsbio-hybrid-computingbiological-computingdishbrain
  3

• Unlimited-Research-Cooperative / Human-Brain-Organoid-Bacterial-Neural-Link

  Bacterial colonies attaching themselves to human brain organoids, as a neural link to a silicon computer

  bacteriabcibrain-computer-interfacehuman-brain-organoidneural-interfacesneural-linkorganoids
  3

• Scaramir / HD_colocalization

  Preprocess, noise-reduction, threshold & quantify images to get box plots for each class (mainly cell cultures of different cel llines). Colocalization due to a naive trick of counting all overlapping signals/pixels. Could be done in ImageJ as well, but i thought this is better suited than fiddling with macros.

  colocalizationimagejquantificationopencv2organoidsthresholding
  Language:Python 2

• ajinkya-kulkarni / PyOrganoIDNet

  This repository provides StarDist and CellPose models, meticulously trained on a large dataset of Pancreatic Ductal Adenocarcinoma organoids co-cultured with immune cells. Pre-print available at https://www.biorxiv.org/content/10.1101/2024.02.12.580032v1

  cellposedeep-learningorganoid-segmentationorganoidsstardist
  Language:Jupyter Notebook 1

• bardylab / miscos_org_ephys

  Electrophysiology analysis in ventral midbrain-striatal-cortical organoids (MISCOs) pre- and post- optogenetic stimulation.

  calcium-imagingextracellular-recordingsmulti-unitoptogeneticsoptogenetics-stimulationorganoidsprobessignal-processing
  Language:Jupyter Notebook 1

• LittleQBerry / TransOrga

  Oraganoid segmentation tool

  organoidssegmentation
  Language:Python 1

• alex-merge / Organoid-Analyzing-Tools

  Organoid Analyzing Tools (OAT) is a package that allow you to analyze organoids dynamics.

  organoids
  Language:Python 0

• jarnokoetsier / Exosomal-MicroRNA-Profile

  Involvement of Extracellular Vesicle-derived miRNA clusters in Developing Healthy and Rett Syndrome Brain Organoids

  extracellular-vesiclesmirnaorganoidsrett-syndrome
  Language:R 0

• boutroslab / Supp_Funk_2021

  aginganalysisinflammationintestineorganoidssingle-cell
  Language:HTML