gennadylaptev

gennadylaptev's Stars

• rtqichen/torchdiffeq

  Differentiable ODE solvers with full GPU support and O(1)-memory backpropagation.

  Language:Python5.5k909

• matanhofree/crc-immune-hubs

  Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organized multicellular immune hubs in human colorectal cancer"

  Language:Jupyter Notebook344

• saibalmars/GraphRicciCurvature

  A python library to compute the graph Ricci curvature and Ricci flow on NetworkX graph.

  Language:Python22456

• mousepixels/sanbomics_scripts

  scripts and notebooks from sanbomics

  Language:Jupyter Notebook336130

• neurreps/awesome-neural-geometry

  A curated collection of resources and research related to the geometry of representations in the brain, deep networks, and beyond

  90460

• zsteve/gWOT

  Global Waddington-OT

  Language:Python203

• iamalexkorotin/NeuralOptimalTransport

  PyTorch implementation of "Neural Optimal Transport" (ICLR 2023 Spotlight)

  Language:Jupyter Notebook17019

• broadinstitute/wot

  A software package for analyzing snapshots of developmental processes

  Language:Jupyter Notebook13634

• mossjacob/pyslingshot

  Python implementation of the Slingshot pseudotime algorithm

  Language:Jupyter Notebook497

• kstreet13/slingshot

  Functions for identifying and characterizing continuous developmental trajectories in single-cell data.

  Language:R26042

• theislab/paga

  Mapping out the coarse-grained connectivity structures of complex manifolds.

  Language:Jupyter Notebook19933

• NBISweden/excelerate-scRNAseq

  Single RNA-seq data analysis with R (Finland, May, 2019)

  Language:HTML216107

• NBISweden/workshop-scRNAseq

  Single cell RNA sequencing analysis course

  Language:HTML19096

• zsteve/mfl

  Trajectory Inference via Mean-field Langevin in Path Space

  Language:Jupyter Notebook3

• CBIIT/TULIP

  Classifying RNA-seq samples into different tumor types.

  Language:Python23

• tulikakakati/DEGnext

  Language:Python72

• cole-trapnell-lab/monocle3

  Language:R324101

• aet21/SCENT

  Estimation of Single-Cell Potency with Single Cell Entropy

  Language:R379

• anthbapt/Cellular-differentiation-trajectories-with-Ricci-flow

  Charting cellular differentiation trajectories with normalised discrete Ricci flow

  Language:R11

• agitter/single-cell-pseudotime

  An overview of algorithms for estimating pseudotime in single-cell RNA-seq data

  39660

• dynverse/dynbenchmark

  Comparison of methods for trajectory inference on single-cell data 🥇

  Language:R19139

• dynverse/dynmethods

  A collection of 50+ trajectory inference methods within a common interface 📥📤

  Language:R11826

• dynverse/dynguidelines

  Selecting the optimal trajectory inference based on a given dataset and user input 🔮

  Language:R177

• zcang/scGeom

  Language:Python5

• karpathy/nanoGPT

  The simplest, fastest repository for training/finetuning medium-sized GPTs.

  Language:Python36.1k5.6k

• Teichlab/HCA_Heart_ver2

  Language:Jupyter Notebook161

• fedelopez77/sympa

  Embedding graphs in symmetric spaces

  Language:Python278

• Lifoof/MoGCN

  Multi-omics integration method using AE and GCN

  Language:Python2812

• pyt-team/TopoModelX

  Topological Deep Learning

  Language:Jupyter Notebook21979

• mcavus/Kernighan-Lin

  Implementation of Kernighan-Lin graph partitioning algorithm in Python

  Language:Python5017