swne

Biological data visualization tool

A method and library for visualizing high-dimensional biological datasets using dimensionality reduction techniques.

Similarity Weighted Nonnegative Embedding (SWNE), a method for visualizing high dimensional datasets

GitHub

105 stars
5 watching
19 forks
Language: R
last commit: about 3 years ago
Linked from 1 awesome list

bioinformaticsdata-visualizationdimensionality-reductionnonnegative-matrix-factorizationsingle-cell-analysissingle-cell-atac-seqsingle-cell-genomicssingle-cell-rna-seqstatistical-methods

Backlinks from these awesome lists:

Related projects:

RepositoryDescriptionStars
krishnaswamylab/phateA tool for visualizing high-dimensional biological data using a novel dimensionality reduction method480
natverse/natAn R package for visualizing and analyzing 3D biological image data64
yoseflab/fastprojectProvides tools and methods for visualizing and analyzing single cell RNA-seq data in low dimensions35
ebi-webcomponents/nightingaleA collection of reusable visualisation components for life sciences data124
yulab-smu/ggscA package for visualizing single cell and spatial transcriptomics data using R43
brainglobe/brainrenderA Python package to visualize neuroanatomical data in 3D553
yuifu/millefyVisualizes read coverage of single-cell RNA-seq datasets in genomic contexts to highlight cell-to-cell heterogeneity28
swainasish/spatialpromptA software tool for analyzing spatial transcriptomics data by separating cell types from location information12
zudi-lin/pytorch_connectomicsA deep learning framework for automatic and semi-automatic segmentation of 3D image stacks in connectomics172
aertslab/scopeA tool for fast visualization of large-scale single-cell data68
welch-lab/ligerAn R package for integrating and analyzing multiple single-cell datasets using nonnegative-matrix factorization397
sentinal4d/cellshapeAnalyzes 3D cell shape features using deep learning for cancer research21
zjufanlab/spatalkAn R package that infers cell-cell communication and ligand-receptor-target networks from spatially resolved transcriptomic data61
scverse/scvi-toolsProbabilistic analysis tools for single-cell omics data1,270
qile0317/apackoftheclonesTools for visualizing and analyzing clonal expansion in immune cell populations14