28 Open source projects that are alternatives of or similar to cTPnet

A tool for semi-automatic cell type annotation

BEER: Batch EffEct Remover for single-cell data

Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.

SHARP: Single-cell RNA-seq Hyper-fast and Accurate processing via ensemble Random Projection

Efficient and precise single-cell reference atlas mapping with Symphony

Demultiplexing pooled scRNA-seq data with or without genotype reference

Spatial alignment of single cell transcriptomic data.

Single cell type annotation guided by cell atlases, with freedom to be queer

scGEAToolbox: Matlab toolbox for single-cell gene expression analyses

A tool for fast and accurate summarizing of variant calling format (VCF) files

A deep learning-based tool for alignment and integration of single cell genomic data across multiple datasets, species, conditions, batches

Imputation method for scRNA-seq based on low-rank approximation

Discover differential transcript usage from polyA-captured single cell RNA-seq data

Clone identification from single-cell data

An unofficial demultiplexing strategy for SPLiT-seq RNA-Seq data

Examples using Clustergrammer2 to explore high-dimensional datasets.

Pipeline for initial analysis of droplet-based single-cell RNA-seq data

Spatial Transcriptomics Dashboard

Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.

Deep learning model for single-cell inference of multi-omic profiles from a single input modality.

Reference mapping for single-cell genomics

Papers with code for single cell related papers

Reconstruction of complex single-cell trajectories using CellRouter

Clustering scRNAseq by genotypes

Conversion between scRNA-seq objects

Harmony framework for connecting scRNA-seq data from discrete time points

Single-cell Hierarchical Poisson Factorization

Protein Secondary Structure predictor using Convolutional Neural Networks