Alternatives and similar repositories for brainmapr

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

• AllenInstitute / mfishtools
  Building Gene Sets and Mapping mFISH Data
  ☆16Updated last year
• oganm / allenBrain
  Acquiring images from allen brain atlas, mouse ISH experiments in R.
  ☆16Updated last year
• JCVenterInstitute / FRmatch
  Cell type matching in single-cell RNA-sequencing data using FR-Match
  ☆19Updated 2 months ago
• miti-consortium / MITI
  Minimum Information about Tissue Imaging
  ☆20Updated last year
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆27Updated 8 months ago
• AllenInstitute / nomenclature
  This repository contains code to generate standardized cell type nomenclature from an R "dendrogram".
  ☆13Updated 3 years ago
• cantin-ortiz / molecular-atlas
  This repository contains the code used for the paper "Molecular Atlas of the Adult Mouse Brain".
  ☆16Updated 4 years ago
• wahlby-lab / graph-iss
  Graph-based Decoding for In Situ Sequencing
  ☆10Updated 4 years ago
• linnarsson-lab / brainmap
  Allen Brain Atlas utilities, parsers and data structures
  ☆11Updated 7 years ago
• emanuega / MERlin
  MERlin is an extensible analysis pipeline applied to decoding MERFISH data
  ☆35Updated 3 years ago
• LieberInstitute / dotdotdot
  Example vignette for dotdotdot software
  ☆18Updated 4 years ago
• AllenInstitute / scrattch
  Single cell RNA-seq analysis for transcriptomic type characterization
  ☆37Updated last month
• AllenInstitute / cell_type_mapper
  Repository for storing prototype functionality implementations for the BKP
  ☆27Updated 2 weeks ago
• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆27Updated 8 months ago
• ZhuangLab / MERlin
  MERFISH decoding software
  ☆26Updated last year
• akoyabio / phenoptr
  Helper functions for working with inForm data.
  ☆16Updated 3 years ago
• alexandrovteam / SpaceM
  ☆15Updated 8 months ago
• mjin1812 / SMART
  Semi-manual alignment to reference templates (SMART): An open source pipeline in R for whole brain mapping
  ☆14Updated 3 years ago
• mbernste / SpatialCorr
  SpatialCorr: Identify gene sets with spatially varying correlation
  ☆17Updated last year
• AllenInstitute / scrattch.vis
  scRNA-seq data visualization from scrattch
  ☆26Updated last month
• AllenInstitute / MTG_celltypes
  Human cortical cell types
  ☆24Updated 5 years ago
• SpatialTranscriptomicsResearch / st_viewer
  A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets
  ☆13Updated 4 years ago
• theislab / interactive_plotting
  ☆21Updated 4 years ago
• ChristophH / in-lineage
  Data and code for the paper "Developmental diversification of cortical inhibitory interneurons"
  ☆24Updated 6 years ago
• pachterlab / voyagerpy
  ☆13Updated 11 months ago
• const-ae / transformGamPoi
  Variance stabilizing transformation for Gamma Poisson distributed data
  ☆22Updated 2 years ago
• niaid / imaris_extensions
  Algorithmic and Utility Extensions for the Imaris Program
  ☆17Updated 8 months ago
• linnarsson-lab / pysmFISH
  Analysis of smFISH data
  ☆11Updated 6 years ago
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆37Updated last year
• almaan / eggplant
  ☆21Updated 2 years ago