Alternatives and similar repositories for molecular-atlas:

Users that are interested in molecular-atlas are comparing it to the libraries listed below

• hms-dbmi / brainmapr
  R package to infer spatial location of neuronal subpopulations within the developing mouse brain by integrating single-cell RNA-seq data …
  ☆17Updated 9 years ago
• AllenInstitute / scrattch
  Single cell RNA-seq analysis for transcriptomic type characterization
  ☆36Updated last week
• linnarsson-lab / brainmap
  Allen Brain Atlas utilities, parsers and data structures
  ☆11Updated 7 years ago
• oganm / allenBrain
  Acquiring images from allen brain atlas, mouse ISH experiments in R.
  ☆16Updated last year
• AllenInstitute / cell_type_mapper
  Repository for storing prototype functionality implementations for the BKP
  ☆24Updated last week
• mjin1812 / SMART
  Semi-manual alignment to reference templates (SMART): An open source pipeline in R for whole brain mapping
  ☆14Updated 3 years ago
• LieberInstitute / dotdotdot
  Example vignette for dotdotdot software
  ☆18Updated 4 years ago
• AllenInstitute / abc_atlas_access
  Documentation and examples demonstrating how to access data from the Allen Brain Cell Atlas
  ☆65Updated this week
• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆27Updated 6 months ago
• ZhuangLab / MERFISH_analysis
  Matlab software for the analysis of MERFISH data and the construction of MERFISH probes.
  ☆50Updated 3 years ago
• emanuega / MERlin
  MERlin is an extensible analysis pipeline applied to decoding MERFISH data
  ☆35Updated 3 years ago
• AllenInstitute / mfishtools
  Building Gene Sets and Mapping mFISH Data
  ☆16Updated last year
• linnarsson-lab / pysmFISH
  Analysis of smFISH data
  ☆11Updated 6 years ago
• xiaoqunwang-lab / Allendigger
  AllenDigger, a tool for spatial expression data visualization, spatial heterogeneity delineation and single cell registration based on Al…
  ☆14Updated 2 years ago
• andymckenzie / BRETIGEA
  Brain Cell Type Specific Gene Expression Analysis
  ☆15Updated last year
• quadbio / VoxHunt
  VoxHunt: Resolving human brain organoid heterogeneity through single-cell genomic comparison to spatial brain maps
  ☆46Updated last year
• jeremymsimon / MouseCortex
  ☆9Updated 6 years ago
• linnarsson-lab / FISHscale
  Spatial analysis of FISH data
  ☆30Updated 10 months ago
• wahlby-lab / graph-iss
  Graph-based Decoding for In Situ Sequencing
  ☆10Updated 4 years ago
• JaneliaSciComp / multifish
  EASI-FISH analysis pipeline for spatial transcriptomics
  ☆34Updated 4 months ago
• hubmapconsortium / spatial-transcriptomics-pipeline
  ☆30Updated 11 months ago
• beliveau-lab / PaintSHOP_pipeline
  A scalable machine learning pipeline for probe specificity prediction.
  ☆14Updated last year
• ZhuangLab / MERlin
  MERFISH decoding software
  ☆26Updated last year
• BodenmillerGroup / readimc
  Python package for reading imaging mass cytometry (IMC) files
  ☆14Updated last week
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆26Updated 6 months ago
• dhglab / Broad-transcriptomic-dysregulation-across-the-cerebral-cortex-in-ASD
  Code accompanying the manuscript "Broad transcriptomic dysregulation across the cerebral cortex in ASD".
  ☆13Updated 2 years ago
• daniel-munro / imageCCA
  Code for preparing and running the imageCCA method.
  ☆20Updated 7 years ago
• JCVenterInstitute / FRmatch
  Cell type matching in single-cell RNA-sequencing data using FR-Match
  ☆19Updated 2 weeks ago
• AllenInstitute / nomenclature
  This repository contains code to generate standardized cell type nomenclature from an R "dendrogram".
  ☆13Updated 2 years ago
• acycliq / pciSeq
  A probabilistic cell typing algorithm for spatial transcriptomics.
  ☆23Updated this week