Alternatives and similar repositories for embeddr

Users that are interested in embeddr are comparing it to the libraries listed below

• Teichlab / GPfates
  ☆19Updated 7 years ago
• nghiavtr / BPSC
  Beta-Poisson model for single-cell RNA-seq data analyses
  ☆16Updated 6 years ago
• kieranrcampbell / phenopath
  Genomic trajectories (pseudotimes) in the presence of heterogenous environmental and genetic backgrounds
  ☆10Updated 6 years ago
• kieranrcampbell / switchde
  Inference of switch-like differential expression along single-cell trajectories
  ☆20Updated 7 years ago
• architverma1 / tGPLVM
  tGPLVM: A Nonparametric, Generative Model for Manifold Learning with scRNA-seq experimental data
  ☆17Updated 6 years ago
• kieranrcampbell / pseudogp
  Probabilistic pseudotime for single-cell RNA-seq data
  ☆10Updated 7 years ago
• czi-hca-comp-tools / easy-data
  easy access to benchmark datasets
  ☆50Updated 6 years ago
• shahcompbio / MultiModalMuSig.jl
  A Julia package for extracting mutation signatures using topic models
  ☆18Updated 3 years ago
• theislab / graph_abstraction
  Generate cellular maps of differentiation manifolds with complex topologies.
  ☆26Updated 7 years ago
• pachterlab / kite
  kallisto index tag extractor
  ☆20Updated 5 years ago
• waldronlab / SingleCellMultiModal
  Single Cell multimodal data scripts for downloading datasets
  ☆17Updated 2 weeks ago
• cole-trapnell-lab / cicero
  ☆12Updated last year
• jessemzhang / tn_test
  post-clustering differential expression test
  ☆35Updated 6 years ago
• mikelove / alpine
  Modeling and correcting fragment sequence bias for RNA-seq
  ☆24Updated last year
• KlugerLab / t-SNE-Heatmaps
  Beta version of 1D t-SNE heatmaps to visualize expression patterns of hundreds of genes simultaneously in scRNA-seq
  ☆48Updated 6 years ago
• lcrawlab / BANNs
  Code and simulations using biologically annotated neural networks
  ☆21Updated 3 years ago
• fperraudeau / singlecellworkflow
  Tutorial for the analysis of scRNA-seq data in R
  ☆18Updated 6 years ago
• bioFAM / slalom
  ☆29Updated 2 years ago
• KChen-lab / SCMER
  Marker Selection by matching manifolds and elastic net
  ☆23Updated 8 months ago
• edsgard / scphaser
  R package for haplotype phasing using single-cell RNA-seq data
  ☆13Updated 7 years ago
• igrabski / scRNAseq-cell-type
  Probabilistic gene expression barcodes for cell type annotation
  ☆25Updated 3 years ago
• YosefLab / FastProject
  Dimensionality reduction for single cell RNA-seq data
  ☆35Updated 5 years ago
• pachterlab / NYMP_2018
  ☆28Updated 6 years ago
• anna-neufeld / countsplit
  ☆21Updated last year
• xzhoulab / DRComparison
  Comparison of dimensionality reduction methods
  ☆30Updated 5 years ago
• theislab / pseudodynamics
  Dynamic models for single-cell RNA-seq time series.
  ☆40Updated 6 years ago
• pachterlab / MBGBLHGP_2019
  Code for reproducing results from the paper "Modular and efficient pre-processing of single-cell RNA-seq data"
  ☆23Updated 4 years ago
• czbiohub-sf / molecular-cross-validation
  Calibrate and compare methods for denoising single-cell RNA-seq data
  ☆2Updated 4 years ago
• stephaniehicks / methylCC
  R/BioC package to estimate the cell composition of whole blood in DNA methylation samples in microarray or sequencing platforms
  ☆19Updated 2 years ago
• davidaknowles / eagle
  An R package for detecting Gene-by-Environment (GxE) interaction effects on the transcriptome using Allele Specific Expression quantified…
  ☆21Updated 3 years ago