Alternatives and similar repositories for merfishtools

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

• COMBINE-lab / pyroe
  ☆16Updated 7 months ago
• JEFworks-Lab / MERmaid
  WebGL-based viewer for spatially-resolved transcriptomics data
  ☆28Updated 2 years ago
• bioturing / hera-t
  Hera-T, a fast and accurate tool for estimating gene abundances in single cell data generated by the 10X-Chromium protocol
  ☆18Updated 3 years ago
• YosefLab / FastProject
  Dimensionality reduction for single cell RNA-seq data
  ☆36Updated 5 years ago
• 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
• czbiohub-sf / cerebra
  A tool for fast and accurate summarizing of variant calling format (VCF) files
  ☆61Updated 2 years ago
• czi-hca-comp-tools / easy-data
  easy access to benchmark datasets
  ☆50Updated 7 years ago
• normjam / benchmark
  Comparison of single-cell normalization methods using multiple datasets with ground-truth labels
  ☆19Updated 5 years ago
• czbiohub-sf / scRFE
  Single-cell identity definition using random forest modelling and recursive feature elimination
  ☆12Updated 5 years ago
• brentp / python-giggle
  python (cython) wrapper for https://github.com/ryanlayer/giggle for fast interval searching of huge datasets.
  ☆16Updated 7 years ago
• czbiohub-sf / tabula-muris-vignettes
  Examples analyses using the single-cell RNA-seq data from mouse cell atlases
  ☆23Updated 5 years ago
• kundajelab / dfim
  Deep Feature Interaction Maps (DFIM)
  ☆54Updated 6 years ago
• single-cell-data / SOMA
  A flexible and extensible API for annotated 2D matrix data stored in multiple underlying formats.
  ☆79Updated 2 months ago
• Teichlab / GPfates
  ☆21Updated 8 years ago
• scverse / genomic-features
  Genomic Features in Python from BioConductor's AnnotationHub
  ☆22Updated last week
• flo-compbio / xlmhg
  XL-mHG: A Semiparametric Test for Enrichment in Ranked Lists.
  ☆14Updated 2 years ago
• broadinstitute / scRNA-Seq
  ☆12Updated 2 years ago
• dawe / schist
  An interface for Nested Stochastic Block Model for single cell analysis
  ☆36Updated last month
• ShobiStassen / PARC
  ☆42Updated last year
• cole-trapnell-lab / cicero
  ☆12Updated last year
• andreaskapou / BPRMeth
  Modelling DNA methylation profiles
  ☆23Updated 5 years ago
• nolanlab / vortex
  VorteX Clustering Environment - Java graphical tool for single-cell analysis, clustering and visualization. Latest release:
  ☆34Updated 2 years ago
• theislab / batchglm
  Fit generalized linear models in python.
  ☆28Updated 2 years ago
• klarman-cell-observatory / scPlot
  Single cell interactive plotting tools
  ☆23Updated 5 years ago
• hms-dbmi / brainmapr
  R package to infer spatial location of neuronal subpopulations within the developing mouse brain by integrating single-cell RNA-seq data …
  ☆16Updated 10 years ago
• deeptools / py2bit
  A python library for accessing 2bit files
  ☆20Updated 7 months ago
• nf-core / mcmicro
  An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.
  ☆21Updated last month
• TaylorResearchLab / scedar
  Single-cell exploratory data analysis for RNA-Seq
  ☆40Updated 4 years ago
• gagneurlab / concise
  Concise: Keras extension for regulatory genomics
  ☆35Updated 2 years ago
• viash-io / viash
  script + metadata = standalone component
  ☆43Updated last week