SpatialTranscriptomicsResearch

Pinned Repositories

st_analysis
A toolkit for visualisation and analysis of Spatial Transcriptomics datasets
Language:Python5 3 15
st_pipeline
ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method in FASTQ format.
Language:Python80 7 2030
st_spot_detector
A web tool to do automatic spots detections and positional adjustments for Spatial Transcriptomics Datasets.
Language:JavaScript23 8 3110
st_spot_detector_singularity
Singularity setup script for the ST Spot detector
1 2 00
st_tissue_recognition
A tool to create masks around the tissue area in a Spatial Transcriptomics' brightfield image
Language:C++1 4 33
st_viewer
A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets
Language:C++13 4 04
std-nb
Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018
Language:C++21 4 23
std-poisson
Poisson regression for Spatial Transcriptomics data as described in Berglund et al. 2018
Language:C++6 3 21
taggd
Genetic barcode demultiplexing
Language:Python1 1 01
transcriptomoscope
Dimensionality reduction and Voronoi tesselation plotting code for spatial transcriptomics data
Language:R1 4 00

SpatialTranscriptomicsResearch's Repositories

SpatialTranscriptomicsResearch/st_pipeline
ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method in FASTQ format.
Language:Python80 7 2030
SpatialTranscriptomicsResearch/st_spot_detector
A web tool to do automatic spots detections and positional adjustments for Spatial Transcriptomics Datasets.
Language:JavaScript23 8 3110
SpatialTranscriptomicsResearch/std-nb
Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018
Language:C++21 4 23
SpatialTranscriptomicsResearch/st_viewer
A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets
Language:C++13 4 04
SpatialTranscriptomicsResearch/std-poisson
Poisson regression for Spatial Transcriptomics data as described in Berglund et al. 2018
Language:C++6 3 21
SpatialTranscriptomicsResearch/st_analysis
A toolkit for visualisation and analysis of Spatial Transcriptomics datasets
Language:Python5 3 15
SpatialTranscriptomicsResearch/st_spot_detector_singularity
Singularity setup script for the ST Spot detector
1 2 00
SpatialTranscriptomicsResearch/st_tissue_recognition
A tool to create masks around the tissue area in a Spatial Transcriptomics' brightfield image
Language:C++1 4 33
SpatialTranscriptomicsResearch/taggd
Genetic barcode demultiplexing
Language:Python1 1 01
SpatialTranscriptomicsResearch/transcriptomoscope
Dimensionality reduction and Voronoi tesselation plotting code for spatial transcriptomics data
Language:R1 4 00
SpatialTranscriptomicsResearch/st_admin
A web based tool to administrate and create Spatial Transcriptomics datasets
Language:Java0 2 00
SpatialTranscriptomicsResearch/TACA
Tool for the Automation of Cleanup and Analyses
Language:Python0 1 00
SpatialTranscriptomicsResearch/st_api
A RESTFul API to provide access to the Spatial Transcriptomics datasets stored in a database.
Language:Java2 0