Alternatives and similar repositories for MERmaid:

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

• pachterlab / kite
  kallisto index tag extractor
  ☆20Updated 5 years ago
• ncbi / scPopCorn
  A python tool to do comparative analysis of mulitple single cell datasets.
  ☆22Updated 5 years ago
• meuleman / epilogos
  Methods for summarizing and visualizing multi-biosample functional genomic annotations
  ☆44Updated last year
• JEFworks / ubit2
  User-friendly Bioinformatics Tools
  ☆18Updated 4 years ago
• vitessce / vitessceR
  R API and htmlwidget for Vitessce
  ☆40Updated 5 months ago
• czbiohub-sf / molecular-cross-validation
  Calibrate and compare methods for denoising single-cell RNA-seq data
  ☆2Updated 4 years ago
• klarman-cell-observatory / scPlot
  Single cell interactive plotting tools
  ☆23Updated 4 years ago
• normjam / benchmark
  Comparison of single-cell normalization methods using multiple datasets with ground-truth labels
  ☆19Updated 5 years ago
• gokceneraslan / pyannotables
  Python package for conversions between ENSEMBL IDs and gene names (annotables + pyensembl)
  ☆11Updated 2 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
• YosefLab / FastProject
  Dimensionality reduction for single cell RNA-seq data
  ☆35Updated 5 years ago
• billgreenwald / pgltools
  Paired Genomic Loci Tool Suite
  ☆30Updated 2 years ago
• rajewsky-lab / spacemake
  ☆41Updated this week
• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆35Updated 3 weeks ago
• SpatialTranscriptomicsResearch / st_viewer
  A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets
  ☆13Updated 3 years ago
• aidenlab / JuiceboxLegacy
  OLD REPOSITORY - Go to
  ☆31Updated 7 years ago
• broadinstitute / scRNA-Seq
  ☆12Updated last year
• pachterlab / sircel
  Identify cell barcodes from single-cell genomics sequencing experiments
  ☆43Updated 3 years ago
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated last year
• fabilab / northstar
  Single cell type annotation guided by cell atlases, with freedom to be queer
  ☆25Updated 2 years ago
• lamortenera / epicseg
  Chromatin segmentation in R
  ☆19Updated 7 years ago
• KenLauLab / dropkick
  Automated cell filtering for single-cell RNA sequencing data
  ☆24Updated last year
• mandricigor / imrep
  ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.
  ☆28Updated 5 years ago
• TaylorResearchLab / scedar
  Single-cell exploratory data analysis for RNA-Seq
  ☆40Updated 3 years ago
• higlass / higlass-python
  Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer
  ☆55Updated last week
• PouletAxel / SIP
  SIP: Significant Interaction Peak caller
  ☆14Updated 8 months ago
• Vivianstats / scLink
  Inferring gene co-expression networks from single cell gene expression data
  ☆24Updated 2 years ago
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆29Updated 4 months ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 5 years ago
• nf-core / scflow
  Please consider using/contributing to https://github.com/nf-core/scdownstream
  ☆24Updated 9 months ago