Alternatives and similar repositories for pyflow-cellranger

Users that are interested in pyflow-cellranger are comparing it to the libraries listed below

• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆89Updated 4 months ago
• netbiolab / scHumanNet
  Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3
  ☆44Updated last month
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆76Updated 2 years ago
• vibscc / DALI
  R-package for the analysis of single-cell TCR/BCR data in the Seurat ecosystem
  ☆20Updated 6 months ago
• CFeregrino / scWGCNA
  scWGCNA
  ☆61Updated 2 years ago
• theislab / AutoGeneS
  ☆61Updated 4 years ago
• GfellerLab / SuperCell
  Coarse-graining of large single-cell RNA-seq data into metacells
  ☆90Updated 3 months ago
• minoda-lab / universc
  UniverSC: a flexible cross-platform single-cell data processing pipeline
  ☆46Updated last year
• neurorestore / DE-analysis
  ☆39Updated 4 years ago
• niaid / dsb
  Normalize CITEseq Data
  ☆66Updated 6 months ago
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆77Updated last year
• wmacnair / psupertime
  psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels
  ☆43Updated 3 years ago
• BorchLab / Trex
  Using TCR and expression for sequence embedding
  ☆59Updated 2 months ago
• czbiohub-sf / tabula-sapiens
  Single Cell Transcriptomics of 25 Human Organs to Create a Tabula Sapiens
  ☆42Updated 2 months ago
• BostonGene / Kassandra
  Bostongene cell deconvolution algorithm from RNAseq
  ☆57Updated last year
• lcmmichielsen / scHPL
  ☆37Updated 7 months ago
• statgen / popscle
  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…
  ☆57Updated 4 years ago
• abelson-lab / scATOMIC
  Pan-Cancer Single Cell Classifier
  ☆82Updated last year
• morris-lab / Capybara
  Capybara: A computational tool to measure cell identity and fate transitions
  ☆59Updated 3 years ago
• scCOVID-19 / COVIDPBMC
  Multi-omics profiling of peripheral immune system response to SARS-CoV-2 infection
  ☆41Updated 3 years ago
• ajwilk / 2020_Wilk_COVID
  Reproducibility repository accompanying Wilk, Rustagi, Zhao, et al. "A single-cell atlas of the peripheral immune response to severe COVI…
  ☆49Updated 4 years ago
• Novartis / scar
  scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
  ☆55Updated last year
• shenorrLabTRDF / bseqsc
  Bulk-Sequence Single-Cell Gene Expression Deconvolution Pipeline
  ☆46Updated 2 years ago
• morris-lab / BiddyetalWorkflow
  This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.
  ☆32Updated last year
• NBISweden / single-cell_sib_scilifelab
  SIB/Scilifelab autumn school in single cell omics 2019.
  ☆22Updated 5 years ago
• cole-trapnell-lab / cicero-release
  ☆58Updated last year
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆109Updated 2 years ago
• prabhakarlab / RCAv2
  R package for robust clustering of single cell RNA sequencing data
  ☆35Updated last year
• saezlab / transcriptutorial
  This is a tutorial to guide the analysis of RNAseq dataset using footprint based tools such as DOROTHEA, PROGENY and CARNIVAL
  ☆56Updated 2 years ago
• cozygene / bisque
  An R toolkit for estimation of cell composition from bulk expression data
  ☆79Updated 4 months ago