GeneticResources

sei-framework

code to run sei and obtain sei and sequence class predictions

course20

Deep Learning for Coders, 2020, the website

pyprobml

Python code for "Probabilistic Machine learning" book by Kevin Murphy

SummarizedExperiment

SummarizedExperiment container

signac

R toolkit for the analysis of single-cell chromatin data

anndata

Annotated data.

bigstatsr

R package for statistical tools with big matrices stored on disk.

SingleCellExperiment

Clone of the Bioconductor repository for the SingleCellExperiment package, see https://bioconductor.org/packages/devel/bioc/html/SingleCellExperiment.html for the official development version.

std-nb

Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018

squidpy

Spatial Single Cell Analysis in Python

Giotto

Spatial omics analysis toolbox

SpatialExperiment

cobolt

A Python package for jointly analyzing multimodal single-cell sequencing data

sns

illumina sequencing data analysis pipelines

liger

R package for integrating and analyzing multiple single-cell datasets

TeachingMaterial

Various teaching material

sparseMatrixStats

Implementation of the matrixStats API for sparse matrices

seurat-object

seurat

R toolkit for single cell genomics

SAIGE