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Semla :
Semla : a versatile toolkit for spatially resolved transcriptomics analysis and visualization
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- Larsson, Ludvig (författare)
- KTH,Genteknologi,Science for Life Laboratory, SciLifeLab
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- Franzén, Lovisa (författare)
- KTH,Genteknologi,Science for Life Laboratory, SciLifeLab,Respiratory & Immunology, Neuroscience, Vaccines & Immune Therapies Safety, Clinical Pharmacology & Safety Sciences, BioPharmaceuticals R&D, AstraZeneca, Pepparedsleden 1, Gothenburg, Sweden
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- Ståhl, Patrik, Dr. (författare)
- KTH,Science for Life Laboratory, SciLifeLab,Genteknologi
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- Lundeberg, Joakim (författare)
- KTH,Science for Life Laboratory, SciLifeLab,Genteknologi
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(creator_code:org_t)
- Oxford University Press (OUP), 2023
- 2023
- Engelska.
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Ingår i: Bioinformatics. - : Oxford University Press (OUP). - 1367-4803 .- 1367-4811. ; 39:10
- Relaterad länk:
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https://doi.org/10.1...
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Ämnesord
Stäng
- SUMMARY: Spatially resolved transcriptomics technologies generate gene expression data with retained positional information from a tissue section, often accompanied by a corresponding histological image. Computational tools should make it effortless to incorporate spatial information into data analyses and present analysis results in their histological context. Here, we present semla, an R package for processing, analysis, and visualization of spatially resolved transcriptomics data generated by the Visium platform, that includes interactive web applications for data exploration and tissue annotation. AVAILABILITY AND IMPLEMENTATION: The R package semla is available on GitHub (https://github.com/ludvigla/semla), under the MIT License, and deposited on Zenodo (https://doi.org/10.5281/zenodo.8321645). Documentation and tutorials with detailed descriptions of usage can be found at https://ludvigla.github.io/semla/.
Ämnesord
- NATURVETENSKAP -- Biologi -- Bioinformatik och systembiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Bioinformatics and Systems Biology (hsv//eng)
Publikations- och innehållstyp
- ref (ämneskategori)
- art (ämneskategori)
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