Alternatives and similar repositories for saber

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

• JaneliaSciComp / multifish
  EASI-FISH analysis pipeline for spatial transcriptomics
  ☆35Updated 6 months ago
• BICCN / cell-locator
  manually align specimens to annotated 3D spaces
  ☆19Updated 2 years ago
• berenslab / mini-atlas
  Phenotypic variation of transcriptomic cell types in mouse motor cortex
  ☆25Updated 3 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 9 years ago
• mjin1812 / SMART
  Semi-manual alignment to reference templates (SMART): An open source pipeline in R for whole brain mapping
  ☆14Updated 3 years ago
• tractatus / wholebrain
  R package for segmentation, registration and generating web-based brain atlases from microscope images
  ☆88Updated 3 years ago
• JaneliaSciComp / exllsm-circuit-reconstruction
  Nextflow pipeline encapsulating workflows for analyzing expansion lattice light-sheet microscopy (ExLLSM) imagery
  ☆13Updated last month
• dgoodwin208 / ExSeqProcessing
  ☆12Updated last year
• AllenInstitute / cocoframer
  COmmon COordinate FRAMEwork in R
  ☆36Updated 5 years ago
• funkelab / daisy
  Block-wise task scheduling for large nD volumes.
  ☆30Updated 2 months ago
• VasylVaskivskyi / microaligner
  Image registration (alignment) software for large microscopy images
  ☆25Updated last year
• ActiveBrainAtlas / MouseBrainAtlas
  A system for building mouse brain atlas from histology series
  ☆11Updated 4 years ago
• multiFISH / EASI-FISH
  Tools and scripts for EASI-FISH image data analysis
  ☆17Updated 2 years ago
• wahlby-lab / graph-iss
  Graph-based Decoding for In Situ Sequencing
  ☆10Updated 4 years ago
• emanuega / MERlin
  MERlin is an extensible analysis pipeline applied to decoding MERFISH data
  ☆35Updated 3 years ago
• SystemsResearch / CUBIC_nprot
  Code for the image processing and analysis described our Nature Protocols paper.
  ☆10Updated 9 years ago
• BIOP / abba_python
  ABBA, controlled from python
  ☆13Updated 2 months ago
• ABIF-McGill / MethodsJ2
  MethodsJ2
  ☆14Updated 3 years ago
• JaneliaSciComp / bigstream
  Tools for distributed alignment of massive images
  ☆81Updated last month
• guiwitz / naparimovie
  Create movies from series of key-frames in napari.
  ☆38Updated 4 years ago
• CAVEconnectome / nglui
  ☆12Updated last week
• zjniu / Piscis
  An automatic deep learning algorithm for spot detection in fluorescence microscopy images.
  ☆21Updated last week
• fmicompbio / ez_zarr
  GIve easy, high-level access to ome-zarr fileset
  ☆16Updated 2 weeks ago
• AllenInstitute / aics-segmentation
  AICS Segmentation (One-Way) Mirror
  ☆45Updated 4 years ago
• TheJacksonLaboratory / ezomero
  A module with convenience functions for writing Python code that interacts with OMERO.
  ☆45Updated this week
• 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
• e11bio / volara
  ☆18Updated last week
• albert597 / TRAILMAP
  ☆45Updated 5 years ago
• BIOP / ijp-imagetoatlas
  ABBA - Aligning Big Brains and Atlases (2D sections to 3D atlas registration)
  ☆49Updated 3 months ago
• SjulsonLab / generalized_contrastive_PCA
  Method to find contrastive dimensions between experimental conditions
  ☆21Updated last month