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
• cantin-ortiz / molecular-atlas
  This repository contains the code used for the paper "Molecular Atlas of the Adult Mouse Brain".
  ☆15Updated 3 years ago
• oganm / allenBrain
  Acquiring images from allen brain atlas, mouse ISH experiments in R.
  ☆15Updated 9 months 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
  ☆10Updated 7 years ago
• AllenInstitute / scrattch
  Single cell RNA-seq analysis for transcriptomic type characterization
  ☆35Updated this week
• AllenInstitute / nomenclature
  This repository contains code to generate standardized cell type nomenclature from an R "dendrogram".
  ☆13Updated 2 years ago
• AllenInstitute / scrattch.vis
  scRNA-seq data visualization from scrattch
  ☆25Updated 9 months ago
• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆25Updated 3 months ago
• AllenInstitute / cell_type_mapper
  Repository for storing prototype functionality implementations for the BKP
  ☆21Updated this week
• pachterlab / voyagerpy
  ☆13Updated 7 months ago
• emanuega / MERlin
  MERlin is an extensible analysis pipeline applied to decoding MERFISH data
  ☆36Updated 3 years ago
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆23Updated 3 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
• linnarsson-lab / pysmFISH
  Analysis of smFISH data
  ☆11Updated 6 years ago
• zjniu / Piscis
  An automatic deep learning algorithm for spot detection in fluorescence microscopy images.
  ☆17Updated this week
• fmi-basel / glib-nature2018-materials
  Image Processing Package for the Paper "Self-organization and symmetry breaking in intestinal organoid development"
  ☆11Updated 4 years ago
• SpatialTranscriptomicsResearch / st_viewer
  A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets
  ☆13Updated 3 years ago
• LieberInstitute / dotdotdot
  Example vignette for dotdotdot software
  ☆18Updated 3 years ago
• tudaga / NMFreg_tutorial
  A tutorial on NMFreg applied to cerebellum data.
  ☆12Updated 4 years ago
• weallen / STARmap
  Software for processing and analyzing STARmap experiments.
  ☆34Updated 5 years ago
• blaineylab / OpticalPooledScreens
  ☆13Updated 2 years ago
• nolanlab / vortex
  VorteX Clustering Environment - Java graphical tool for single-cell analysis, clustering and visualization. Latest release:
  ☆34Updated last year
• AllenInstitute / abc_atlas_access
  Documentation and examples demonstrating how to access data from the Allen Brain Cell Atlas
  ☆58Updated this week
• ZhuangLab / MERlin
  MERFISH decoding software
  ☆26Updated last year
• jfnavarro / st_analysis
  A toolset for analysis and visualisation of Spatial Transcriptomics datasets.
  ☆18Updated 3 years ago
• ChristophH / in-lineage
  Data and code for the paper "Developmental diversification of cortical inhibitory interneurons"
  ☆24Updated 6 years ago
• const-ae / transformGamPoi
  Variance stabilizing transformation for Gamma Poisson distributed data
  ☆21Updated last year
• ZhuangLab / MERFISH_analysis
  Matlab software for the analysis of MERFISH data and the construction of MERFISH probes.
  ☆49Updated 3 years ago
• JCVenterInstitute / FRmatch
  Cell type matching in single-cell RNA-sequencing data using FR-Match
  ☆19Updated 3 months ago