scialdonelab Goto Github PK

2dlegi

Impact of size and geometry of 2D epithelial tissues on the precision of gradient sensing via nearest-neighbour or long-range intercellular communication

cell-competition-paper-figures

ciara

CIARA (Cluster Independent Algorithm for the identification of markers of RAre cell types) is an R package that identifies potential markers of rare cell types looking at genes whose expression is confined in small regions of the expression space

ciara_python

Implementation of entropy of mixing algorithm in python

comunet

COMUNET: a tool to explore and visualize intercellular communication

diffvae

Code for Nature Scientific Reports 2020 paper: "Unsupervised generative and graph neural methods for modelling cell differentiation" by Ioana Bica, Helena Andrés-Terré, Ana Cvejic, Pietro Liò

gastrula_code

granpy

Graph Auto-Encoders (GAE) for Gene Regulatory Network (GRN) completion using scRNA-Seq datasets

human-gastrula-shiny

matacseq

mitohear

MitoHEAR (Mitochondrial HEteroplasmy AnalyzeR) is an R package that allows the estimation as well as downstream statistical analysis of the mtDNA heteroplasmy calculated from single-cell datasets.

reprogramming-cell-fate---ding-yang

The code and data that used in the intern. The aim of the internship is to find whether the boundaries in blastula cells change after nucleus transfer.

scanpy

Single-cell analysis in Python. Scales to >1M cells.

scave

seurat-wrappers

Community-provided extensions to Seurat

spatial-transcriptomics

streamline

STREAMLINE (Topological benchmarking of GRN inference from scRNA-Sequencing data)

wotply