ChIP-seq analysis using R - Experimental design and peak calling.
This lecture is an introduction to ChIP-seq experiments and data. It provides a theoretical background to experimental design and peak calling.
Keywords: ChIP-Seq, Experimental-design, Peak-calling, Visualisation
ChIP-seq analysis using R - Experimental design and peak calling.
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/ChIP-Seq/Bori_Mifsud/EMBO_Oct_2014_ChIP_seq_lecture.md
https://tess.elixir-europe.org/materials/chip-seq-analysis-using-r-experimental-design-and-peak-calling-cfd4c18f-6c86-45ae-ab0b-630422c76af6
This lecture is an introduction to ChIP-seq experiments and data. It provides a theoretical background to experimental design and peak calling.
Bori Mifsud
Kathi Zarnack
ChIP-Seq, Experimental-design, Peak-calling, Visualisation
ChIP-seq analysis using R
ChIP-seq is the most commonly used technique to study binding profiles of chromatin proteins, such as TFs or histone modification patterns. This course is an introduction to ChIP-seq data, and data analysis mainly using R, some command line based peak-callers and online software. It provides a...
Keywords: ChIP-Seq, Experimental-design, Peak-calling, Differential-binding, Visualisation, Annotation, Homo-sapiens, R-programming
ChIP-seq analysis using R
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/ChIP-Seq/Bori_Mifsud/README.md
https://tess.elixir-europe.org/materials/chip-seq-analysis-using-r-5049bc9c-9bbb-4a6b-9244-37ed3980da0e
ChIP-seq is the most commonly used technique to study binding profiles of chromatin proteins, such as TFs or histone modification patterns. This course is an introduction to ChIP-seq data, and data analysis mainly using R, some command line based peak-callers and online software. It provides a theoretical background and the means to perform peak calling and differential binding analysis.
Bori Mifsud
Kathi Zarnack
ChIP-Seq, Experimental-design, Peak-calling, Differential-binding, Visualisation, Annotation, Homo-sapiens, R-programming
ChIP-seq analysis using R - Experimental design and peak calling.
This lecture is an introduction to ChIP-seq experiments and data. It provides a theoretical background to experimental design and peak calling.
Keywords: ChIP-Seq, Experimental-design, Peak-calling, Visualisation
ChIP-seq analysis using R - Experimental design and peak calling.
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/ChIP-Seq/Anna_Poetsch/Day5-1_OIST-HTSA-Workshop-October-2014_ChIPSeq-analysis.md
https://tess.elixir-europe.org/materials/chip-seq-analysis-using-r-experimental-design-and-peak-calling
This lecture is an introduction to ChIP-seq experiments and data. It provides a theoretical background to experimental design and peak calling.
Anna Poetsch
based partially on material from Bori Mifsud
ChIP-Seq, Experimental-design, Peak-calling, Visualisation
ChIP-seq analysis using R - Quality Control
This practical illustrates steps that can be undertaken to assess the quality of the sequencing data. We will start from the fastq files and assess their quality in respect to potential contamination and technical artifacts.
Scientific topics: RNA-Seq
Keywords: ChIP-Seq, RNA-Seq, QC, Data-format, Experimental-design
ChIP-seq analysis using R - Quality Control
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/ChIP-Seq/Anna_Poetsch/Day1-1_OIST-HTSA-Workshop-October-2014_QC-practical.md
https://tess.elixir-europe.org/materials/chip-seq-analysis-using-r-quality-control
This practical illustrates steps that can be undertaken to assess the quality of the sequencing data. We will start from the fastq files and assess their quality in respect to potential contamination and technical artifacts.
Anna Poetsch
RNA-Seq
ChIP-Seq, RNA-Seq, QC, Data-format, Experimental-design
ChIP-seq analysis using R - File formats and QC
This lecture introduces the file formats of sequencing data before alignment and covers the general quality control of sequencing data focussing on RNA-Seq and ChIP-Seq.
Scientific topics: RNA-Seq
Keywords: ChIP-Seq, RNA-Seq, QC, Data-format, Experimental-design
ChIP-seq analysis using R - File formats and QC
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/ChIP-Seq/Anna_Poetsch/Day1-4_OIST-HTSA-Workshop-October-2014_File_formats_and_QC.md
https://tess.elixir-europe.org/materials/chip-seq-analysis-using-r-file-formats-and-qc
This lecture introduces the file formats of sequencing data before alignment and covers the general quality control of sequencing data focussing on RNA-Seq and ChIP-Seq.
Anna Poetsch
RNA-Seq
ChIP-Seq, RNA-Seq, QC, Data-format, Experimental-design
ChIP-seq analysis using R - Practical talk
ChIP-seq is the most commonly used technique to study binding profiles of chromatin proteins, such as TFs or histone modification patterns. This practical is an introduction to ChIP-seq data analysis mainly using R, some command line based peak-callers and online software. It provides means to...
Keywords: ChIP-Seq, Peak-calling, Differential-binding, Visualisation, Annotation, Homo-sapiens, R-programming
ChIP-seq analysis using R - Practical talk
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/ChIP-Seq/Bori_Mifsud/EMBO_Oct_2014_ChIP_seq_practical_talk.md
https://tess.elixir-europe.org/materials/chip-seq-analysis-using-r-practical-talk
ChIP-seq is the most commonly used technique to study binding profiles of chromatin proteins, such as TFs or histone modification patterns. This practical is an introduction to ChIP-seq data analysis mainly using R, some command line based peak-callers and online software. It provides means to perform peak calling, annotation, motif search and differential binding analysis.
Bori Mifsud
Kathi Zarnack
ChIP-Seq, Peak-calling, Differential-binding, Visualisation, Annotation, Homo-sapiens, R-programming
ChIP-seq analysis using R - Mapping and file formats
This lecture introduces the principles behind alignment, different tools and de-novo assembly. It also covers post mapping data format and quality control
Scientific topics: Sequence assembly, RNA-Seq
Keywords: ChIP-Seq, RNA-Seq, Alignment, Data-format, Assembly, QC
ChIP-seq analysis using R - Mapping and file formats
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/ChIP-Seq/Anna_Poetsch/Day1-6_OIST-HTSA-Workshop-October-2014_Mapping_tools_file_formats.md
https://tess.elixir-europe.org/materials/chip-seq-analysis-using-r-mapping-and-file-formats
This lecture introduces the principles behind alignment, different tools and de-novo assembly. It also covers post mapping data format and quality control
Anna Poetsch
based partially on material from Ernest Turro University of Cambridge
Sequence assembly
RNA-Seq
ChIP-Seq, RNA-Seq, Alignment, Data-format, Assembly, QC
ChIP-seq analysis using R - Quality Control Walkthrough
This practical illustrates steps that can be undertaken to assess the quality of the sequencing data. We will start from the fastq files and assess their quality in respect to potential contamination and technical artifacts.
Scientific topics: RNA-Seq
Keywords: ChIP-Seq, RNA-Seq, QC, Data-format, Experimental-design
ChIP-seq analysis using R - Quality Control Walkthrough
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/ChIP-Seq/Anna_Poetsch/Day1-1_OIST-HTSA-Workshop-October-2014_QC-practical_walkthrough.md
https://tess.elixir-europe.org/materials/chip-seq-analysis-using-r-quality-control-walkthrough
This practical illustrates steps that can be undertaken to assess the quality of the sequencing data. We will start from the fastq files and assess their quality in respect to potential contamination and technical artifacts.
Anna Poetsch
RNA-Seq
ChIP-Seq, RNA-Seq, QC, Data-format, Experimental-design
ChIP-seq analysis using R - Practical
ChIP-seq is the most commonly used technique to study binding profiles of chromatin proteins, such as TFs or histone modification patterns. This practical is an introduction to ChIP-seq data analysis mainly using R, some command line based peak-callers and online software. It provides means to...
Keywords: ChIP-Seq, Peak-calling, Differential-binding, Visualisation, Annotation, Homo-sapiens, R-programming
ChIP-seq analysis using R - Practical
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/ChIP-Seq/Bori_Mifsud/EMBO_Oct_2014_ChIP_seq_practical.md
https://tess.elixir-europe.org/materials/chip-seq-analysis-using-r-practical
ChIP-seq is the most commonly used technique to study binding profiles of chromatin proteins, such as TFs or histone modification patterns. This practical is an introduction to ChIP-seq data analysis mainly using R, some command line based peak-callers and online software. It provides means to perform peak calling, annotation, motif search and differential binding analysis.
Bori Mifsud
Kathi Zarnack
ChIP-Seq, Peak-calling, Differential-binding, Visualisation, Annotation, Homo-sapiens, R-programming
ChIP-Seq
No description available
Keywords: ChIP-Seq, Experimental-design, QC, ChIP-Seq-QC, Data-format, Alignment, Peak-calling, Differential-binding, Annotation
ChIP-Seq
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/ChIP-Seq/README.md
https://tess.elixir-europe.org/materials/chip-seq
No description available
ChIP-Seq, Experimental-design, QC, ChIP-Seq-QC, Data-format, Alignment, Peak-calling, Differential-binding, Annotation
ChIP-seq analysis using R
ChIP-seq is the most commonly used technique to study binding profiles of chromatin proteins, such as TFs or histone modification patterns. This course is an introduction to ChIP-seq data, and data analysis mainly using R, some command line based peak-callers and online software. It provides a...
Keywords: ChIP-Seq, Experimental-design, QC, Data-format, Alignment, Peak-calling, Differential-binding, Visualisation, Annotation
ChIP-seq analysis using R
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/ChIP-Seq/Anna_Poetsch/README.md
https://tess.elixir-europe.org/materials/chip-seq-analysis-using-r
ChIP-seq is the most commonly used technique to study binding profiles of chromatin proteins, such as TFs or histone modification patterns. This course is an introduction to ChIP-seq data, and data analysis mainly using R, some command line based peak-callers and online software. It provides a theoretical background and the means to perform peak calling and differential binding analysis.
Anna Poetsch
based partially on material from Bori Mifsud and Ernest Turro
ChIP-Seq, Experimental-design, QC, Data-format, Alignment, Peak-calling, Differential-binding, Visualisation, Annotation