5 materials found
Keywords:
RNA-Seq
RNA-seq data analysis using Chipster
Materials from the ELIXIR tutorial “RNA-seq data analysis using Chipster”, Jan 31, 2017
Scientific topics: Transcriptomics, Genomics
Keywords: transcriptomics, RNA-Seq, eLearning, EeLP
Resource type: course materials, Training materials, Slides, Video
RNA-seq data analysis using Chipster
https://elixir.mf.uni-lj.si/course/view.php?id=9
https://tess.elixir-europe.org/materials/rna-seq-data-analysis-using-chipster
Materials from the ELIXIR tutorial “RNA-seq data analysis using Chipster”, Jan 31, 2017
Eija Korpelainen
Maria Lehtivaara
Eija Korpelainen
Maria Lehtivaara
Transcriptomics
Genomics
transcriptomics, RNA-Seq, eLearning, EeLP
Researchers
Single cell RNA-seq data analysis with R
This hands-on course introduces the participants to single cell RNA-seq data analysis concepts and popular tools and R packages. It covers the preprocessing steps from raw sequence reads to expression matrix as well as clustering, cell type identification, differential expression analysis and...
Scientific topics: RNA-Seq
Keywords: RNA-Seq, Single Cell technologies, scRNA-seq
Resource type: course materials
Single cell RNA-seq data analysis with R
https://www.csc.fi/en/web/training/-/single-cell-rnaseq-r-2018
https://tess.elixir-europe.org/materials/single-cell-rna-seq-data-analysis-with-r
This hands-on course introduces the participants to single cell RNA-seq data analysis concepts and popular tools and R packages. It covers the preprocessing steps from raw sequence reads to expression matrix as well as clustering, cell type identification, differential expression analysis and pseudotime analysis.
Heli Pessa
Bishwa Ghimire
Eija Korpelainen
RNA-Seq
RNA-Seq, Single Cell technologies, scRNA-seq
bioinformaticians
Biologists
Single cell RNA-seq data analysis with Chipster
This course introduces single cell RNA-seq data analysis methods, tools and file formats. It covers the preprocessing steps of DropSeq data from raw reads to a digital gene expression matrix (DGE), and how to find sub-populations of cells using clustering with the Seurat tools. You will also...
Scientific topics: RNA-Seq
Keywords: RNA-Seq, Single Cell technologies, scRNA-seq
Resource type: course materials, Video
Single cell RNA-seq data analysis with Chipster
https://chipster.csc.fi/manual/courses.html#single-cell
https://tess.elixir-europe.org/materials/single-cell-rna-seq-data-analysis-with-chipster-6cc8f0fb-1c92-444b-ab19-b04fe6454430
This course introduces single cell RNA-seq data analysis methods, tools and file formats. It covers the preprocessing steps of DropSeq data from raw reads to a digital gene expression matrix (DGE), and how to find sub-populations of cells using clustering with the Seurat tools. You will also learn how to compare two samples and detect conserved cluster markers and differentially expressed genes in them. The user-friendly Chipster software is used in the exercises, so no Unix or R experience is required and the course is thus suitable for everybody.
Eija Korpelainen
Maria Lehtivaara
Eija Korpelainen
RNA-Seq
RNA-Seq, Single Cell technologies, scRNA-seq
Biologists
bioinformaticians
LXDE RStudio with support for bioconductor tools
An LXDE Rstudio with pre-loaded Bioconductor tools for rna-seq DE analysis & visualisation
Keywords: RNA-Seq, IFR, Institute of Food Research, Quadram Institute
LXDE RStudio with support for bioconductor tools
https://hub.docker.com/r/foodresearch/ifr_rstudio_bioc/
https://tess.elixir-europe.org/materials/lxde-rstudio-with-support-for-bioconductor-tools
An LXDE Rstudio with pre-loaded Bioconductor tools for rna-seq DE analysis & visualisation
Mark Fernandes
RNA-Seq, IFR, Institute of Food Research, Quadram Institute
IFR Dockerised version of the EBI's Introduction to RNA-seq course
This is basically the EBI RNA-seq course bundled up in a Docker container using LXDE via TightVNC to provide a graphical environment. The material has been repackaged to use an Ipython Notebook as the learning environment which can be annotated by the learner.
Keywords: RNA-Seq, IFR, Institute of Food Research, Quadram Institute
IFR Dockerised version of the EBI's Introduction to RNA-seq course
https://hub.docker.com/r/foodresearch/ifr_rnaseq_course/
https://tess.elixir-europe.org/materials/ifr-dockerised-version-of-the-ebi-s-introduction-to-rna-seq-course
This is basically the EBI RNA-seq course bundled up in a Docker container using LXDE via TightVNC to provide a graphical environment. The material has been repackaged to use an Ipython Notebook as the learning environment which can be annotated by the learner.
Mark Fernandes
RNA-Seq, IFR, Institute of Food Research, Quadram Institute