ST Pipeline: an automated pipeline for spatial mapping of unique transcripts
Bioinformatics, 2017•academic.oup.com
Motivation In recent years we have witnessed an increase in novel RNA-seq based
techniques for transcriptomics analysis. Spatial transcriptomics is a novel RNA-seq based
technique that allows spatial mapping of transcripts in tissue sections. The spatial resolution
adds an extra level of complexity, which requires the development of new tools and
algorithms for efficient and accurate data processing. Results Here we present a pipeline to
automatically and efficiently process RNA-seq data obtained from spatial transcriptomics …
techniques for transcriptomics analysis. Spatial transcriptomics is a novel RNA-seq based
technique that allows spatial mapping of transcripts in tissue sections. The spatial resolution
adds an extra level of complexity, which requires the development of new tools and
algorithms for efficient and accurate data processing. Results Here we present a pipeline to
automatically and efficiently process RNA-seq data obtained from spatial transcriptomics …
Motivation
In recent years we have witnessed an increase in novel RNA-seq based techniques for transcriptomics analysis. Spatial transcriptomics is a novel RNA-seq based technique that allows spatial mapping of transcripts in tissue sections. The spatial resolution adds an extra level of complexity, which requires the development of new tools and algorithms for efficient and accurate data processing.
Results
Here we present a pipeline to automatically and efficiently process RNA-seq data obtained from spatial transcriptomics experiments to generate datasets for downstream analysis.
Availability and implementation
The ST Pipeline is open source under a MIT license and it is available at https://github.com/SpatialTranscriptomicsResearch/st_pipeline.
Supplementary information
Supplementary data are available at Bioinformatics online.
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