Alternatives and similar repositories for Roma:

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

• constantAmateur / cellSignalAnalysis
  Identify major cellular signals in bulk transcriptomes
  ☆11Updated 2 years ago
• sysbio-curie / Logical_modelling_pipeline
  Repository of the pipeline of computational methods for logical modelling of biological networks that are deregulated in diseases, develo…
  ☆9Updated 5 years ago
• hukai916 / scATACpipe
  ☆27Updated 5 months ago
• MiraldiLab / maxATAC
  Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks
  ☆28Updated last week
• brianhie / trajectorama
  Multi-study integration of cellular trajectories
  ☆19Updated 4 years ago
• kuijjerlab / retriever
  Generate Robust Disease-Specific Response Signatures from the LINCS-L1000 Data
  ☆14Updated 3 years ago
• theislab / pseudodynamics
  Dynamic models for single-cell RNA-seq time series.
  ☆40Updated 6 years ago
• ncbi / scPopCorn
  A python tool to do comparative analysis of mulitple single cell datasets.
  ☆22Updated 5 years ago
• cellatlas / human
  ☆42Updated 5 months ago
• sysbio-curie / PROFILE
  Repository of "Personalization of Logical Models With Multi-Omics Data Allows Clinical Stratification of Patients" paper
  ☆11Updated 2 years ago
• lcmmichielsen / scHPL
  ☆35Updated last month
• BUStools / BUS_notebooks_python
  ☆23Updated 5 years ago
• saezlab / greta
  Benchmark of GRNs using the GRETA pipeline
  ☆24Updated last month
• rargelaguet / scnmt_gastrulation
  scNMT-seq gastrulation
  ☆42Updated 2 years ago
• GreenleafLab / motifmatchr
  Fast motif matching in R
  ☆47Updated last year
• CancerRxGene / gdsctools
  Tools related to the Genomics of Drug Sensitivity in Cancer (GDSC) projects (http://www.cancerrxgene.org/ )
  ☆36Updated 3 years ago
• combiz / scFlow
  Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.
  ☆56Updated last year
• aristoteleo / Scribe-py
  Regulatory networks with Direct Information in python
  ☆40Updated 2 years ago
• xiaosaiyao / epiregulon
  inference of transcription factor activity at the single cell level
  ☆14Updated 3 weeks ago
• nf-core / scflow
  Please consider using/contributing to https://github.com/nf-core/scdownstream
  ☆25Updated 10 months ago
• YosefLab / scone
  ☆53Updated 2 months ago
• berenslab / umi-normalization
  Companion repository to Lause, Berens & Kobak (2021): "Analytic Pearson residuals for normalization of single-cell RNA-seq UMI data", Gen…
  ☆40Updated 2 years ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 5 years ago
• satijalab / scChromHMM
  🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…
  ☆27Updated 3 years ago
• liulab-dfci / lisa
  epigenome analysis to rank transcription factors
  ☆13Updated 5 years ago
• mainciburu / WAT3R
  Workflow for the Association of T-cell receptors from 3' single-cell RNA-seq (WAT3R)
  ☆21Updated 2 years ago
• ETH-NEXUS / scAmpi_single_cell_RNA
  Code related to scRNA analysis using the scAmpi workflow
  ☆25Updated 5 months ago
• greenelab / ccc
  ☆23Updated 3 months ago
• gofflab / developing_mouse_retina_scRNASeq
  10x single cell RNA-seq data from the developing mouse retina
  ☆16Updated 4 years ago
• JEFworks / MUDAN
  Multi-sample Unified Discriminant ANalysis
  ☆73Updated 2 years ago