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106 materials found

Authors: Obi Griffith  or blankclemens  or Martin Morgan  or Bruno Gaeta  or Yo Yehudi  or David Wishart 


ChIP-seq with csaw

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Scientific topics: ChIP-seq

ChIP-seq with csaw https://tess.elixir-europe.org/materials/chip-seq-with-csaw Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. ChIP-seq
Gene set enrichment

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Operations: Gene-set enrichment analysis

Gene set enrichment https://tess.elixir-europe.org/materials/gene-set-enrichment Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images.
Differential Gene Expression

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Scientific topics: RNA-Seq

Differential Gene Expression https://tess.elixir-europe.org/materials/differential-gene-expression Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. RNA-Seq
Genomic Ranges

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Scientific topics: Genomics

Genomic Ranges https://tess.elixir-europe.org/materials/genomic-ranges Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Genomics
Lecture: Computing with sequences and genomic intervals

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: GenomicRanges

Lecture: Computing with sequences and genomic intervals https://tess.elixir-europe.org/materials/lecture-computing-with-sequences-and-genomic-intervals Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. GenomicRanges
Lab: Performance and Parallel Evaluation

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: LargeData

Lab: Performance and Parallel Evaluation https://tess.elixir-europe.org/materials/lab-performance-and-parallel-evaluation Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. LargeData
Workshop: RNASeq

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Scientific topics: RNA-Seq

Workshop: RNASeq https://tess.elixir-europe.org/materials/workshop-rnaseq Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. RNA-Seq
Supplement 2: RNA-Seq Statistical Issues

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Scientific topics: RNA-Seq

Supplement 2: RNA-Seq Statistical Issues https://tess.elixir-europe.org/materials/supplement-2-rna-seq-statistical-issues Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. RNA-Seq
Supplement 1: RNA-Seq Workflow

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Scientific topics: RNA-Seq

Supplement 1: RNA-Seq Workflow https://tess.elixir-europe.org/materials/supplement-1-rna-seq-workflow Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. RNA-Seq
RNA-Seq Differential Expression

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Scientific topics: RNA-Seq

RNA-Seq Differential Expression https://tess.elixir-europe.org/materials/rna-seq-differential-expression Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. RNA-Seq
ChIP-Seq for Understanding Gene Regulation

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Scientific topics: ChIP-seq

ChIP-Seq for Understanding Gene Regulation https://tess.elixir-europe.org/materials/chip-seq-for-understanding-gene-regulation Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. ChIP-seq
Counting Reads And Working With Large Files

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: Large Data

Counting Reads And Working With Large Files https://tess.elixir-europe.org/materials/counting-reads-and-working-with-large-files Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Large Data
Adding Annotation To Your Analysis

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Operations: Annotation

Adding Annotation To Your Analysis https://tess.elixir-europe.org/materials/adding-annotation-to-your-analysis Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images.
Genomic Ranges For Genome-Scale Data And Annotation

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Scientific topics: Genomics

Genomic Ranges For Genome-Scale Data And Annotation https://tess.elixir-europe.org/materials/genomic-ranges-for-genome-scale-data-and-annotation Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Genomics
Working with Data: SummarizedExperiment

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: SummarizedExperiment

Working with Data: SummarizedExperiment https://tess.elixir-europe.org/materials/working-with-data-summarizedexperiment Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. SummarizedExperiment
Performance and parallel evaluation

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: Performance

Performance and parallel evaluation https://tess.elixir-europe.org/materials/performance-and-parallel-evaluation Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Performance
Gene set enrichment - Introduction

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Operations: Gene-set enrichment analysis

Gene set enrichment - Introduction https://tess.elixir-europe.org/materials/gene-set-enrichment-introduction Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images.
Computing with sequences and ranges

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Scientific topics: Genomics

Computing with sequences and ranges https://tess.elixir-europe.org/materials/computing-with-sequences-and-ranges Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Genomics
Bioconductor for 'Omics Analysis (University of Rochester Medical Center)

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: Overview

Bioconductor for 'Omics Analysis (University of Rochester Medical Center) https://tess.elixir-europe.org/materials/bioconductor-for-omics-analysis-university-of-rochester-medical-center Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Overview
An RNA-seq work flow

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: RNAseq

An RNA-seq work flow https://tess.elixir-europe.org/materials/an-rna-seq-work-flow Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. RNAseq
R / Bioconductor for 'Omics Analysis (U. Idaho)

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: Overview

R / Bioconductor for 'Omics Analysis (U. Idaho) https://tess.elixir-europe.org/materials/r-bioconductor-for-omics-analysis-u-idaho Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Overview
R and Bioconductor for Genomic Analysis

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: Intro

R and Bioconductor for Genomic Analysis https://tess.elixir-europe.org/materials/r-and-bioconductor-for-genomic-analysis Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Intro
Bioconductor Masterclass: Bioconductor Essentials

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: Intro

Bioconductor Masterclass: Bioconductor Essentials https://tess.elixir-europe.org/materials/bioconductor-masterclass-bioconductor-essentials Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Intro
Bioconductor Masterclass: Package Development

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: Devel

Bioconductor Masterclass: Package Development https://tess.elixir-europe.org/materials/bioconductor-masterclass-package-development Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Devel
The Bioconductor Project: Current Status

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: Status

Resource type: Talk

The Bioconductor Project: Current Status https://tess.elixir-europe.org/materials/the-bioconductor-project-current-status Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Status
Informatics and Statistics for Metabolomics 2018 Module 6-Future of Metabolomics

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2018 Module 6-Future of Metabolomics https://tess.elixir-europe.org/materials/informatics-and-statistics-for-metabolomics-2018-module-6-future-of-metabolomics Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases. Researchers Post-Doctoral Fellows Graduate students Biologists, Genomicists, Computer Scientists
Informatics and Statistics for Metabolomics 2018 Module 3-Databases for Chemical, Spectral, and Biological Data

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2018 Module 3-Databases for Chemical, Spectral, and Biological Data https://tess.elixir-europe.org/materials/informatics-and-statistics-for-metabolomics-2018-module-3-databases-for-chemical-spectral-and-biological-data Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases. Researchers Post-Doctoral Fellows Graduate Students Biologists, Genomicists, Computer Scientists
Informatics and Statistics for Metabolomics 2018 Module 2-Metabolite Identification and Annotation

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2018 Module 2-Metabolite Identification and Annotation https://tess.elixir-europe.org/materials/informatics-and-statistics-for-metabolomics-2018-module-2-metabolite-identification-and-annotation Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases. Researchers Graduate students Post-Doctoral Fellows Biologists, Genomicists, Computer Scientists
Informatics and Statistics for Metabolomics 2018 Module 1-Introduction to Metabolomics

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2018 Module 1-Introduction to Metabolomics https://tess.elixir-europe.org/materials/informatics-and-statistics-for-metabolomics-2018-module-1-introduction-to-metabolomics Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases. Researchers Graduate Students Post-Doctoral Fellows Biologists, Genomicists, Computer Scientists
InterMine user tutorial

A tutorial for end users of InterMine

Keywords: Data querying, Data analysis, Data download, FAIR

Resource type: Tutorial

InterMine user tutorial https://tess.elixir-europe.org/materials/intermine-user-tutorial A tutorial for end users of InterMine Data querying, Data analysis, Data download, FAIR Life Science Researchers Bioinformaticians