A treemap. What it is and how to use it
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A treemap. What it is and how to use it
12:36
Ternary (triangle) plot. What is it and how to read it?
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Ternary (triangle) plot. What is it and how to read it?
13:34
Coverage Plot. Multiple functions in R showing genome coverage
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Coverage Plot. Multiple functions in R showing genome coverage
16:05
Descriptive statistics in ChIPpeakAnno
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Descriptive statistics in ChIPpeakAnno
15:33
How I did my videos in 2025
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How I did my videos in 2025
2:57
Custom annotation in ChIPpeakAnno
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Custom annotation in ChIPpeakAnno
9:10
DEScan2: a good alternative to DiffBind package.
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DEScan2: a good alternative to DiffBind package.
17:13
UpSet plot. What it is and how to make it.
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UpSet plot. What it is and how to make it.
15:14
1.9.Removing duplicates from fastq files
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1.9.Removing duplicates from fastq files
10:23
Step Line plot as a substitute for the barplot() in R
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Step Line plot as a substitute for the barplot() in R
6:51
1.8. Add your favourite Venn (Eulerr) to ChIPpeakAnno
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1.8. Add your favourite Venn (Eulerr) to ChIPpeakAnno
10:48
1.7. Read and write files in loop in R
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1.7. Read and write files in loop in R
8:46
1.6. BedTools for differential analysis?
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1.6. BedTools for differential analysis?
10:10
1.5. Add more details to IGV
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1.5. Add more details to IGV
10:04
Make Venn from bed files with ChIPpeakAnno
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Make Venn from bed files with ChIPpeakAnno
11:32
1.4. Making average (most consistent) BED file using Bedtools
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1.4. Making average (most consistent) BED file using Bedtools
16:08
1.3. Convert BAM file into BigWig and make average tracks (of BAM files) for IGV viewer
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1.3. Convert BAM file into BigWig and make average tracks (of BAM files) for IGV viewer
11:10
1.2. Diffbind. What you need (BAM, BED files: where to get them) and minimal protocol
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1.2. Diffbind. What you need (BAM, BED files: where to get them) and minimal protocol
15:59
1.1. Making BED files with MACS3 in python
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1.1. Making BED files with MACS3 in python
11:17
1.0. Sort and index your BAM files using script and samtools
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1.0. Sort and index your BAM files using script and samtools
11:57
0.9. Visualize BAM file in IGV viewer in macOS
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0.9. Visualize BAM file in IGV viewer in macOS
10:58
0.8. Fix broken fastq.gz file
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0.8. Fix broken fastq.gz file
11:29
0.1. An introduction to the Single Cell RNAseq
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0.1. An introduction to the Single Cell RNAseq
8:48
0.7. Map multiple fastq files with rsubread
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0.7. Map multiple fastq files with rsubread
8:05
0.6. Map fastq files with Rsubread
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0.6. Map fastq files with Rsubread
11:28
0.5. Make fastqc and multiqc reports in one python script
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0.5. Make fastqc and multiqc reports in one python script
4:39
Happy New Year with python
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Happy New Year with python
1:01
0.4. Run multiQC with python
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0.4. Run multiQC with python
12:27
0.3. Two ways of using fastqc to generate quality report of your fastq files
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0.3. Two ways of using fastqc to generate quality report of your fastq files
15:54
0.2. Download multiple files from SRA using shell script in macOS
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0.2. Download multiple files from SRA using shell script in macOS
14:22
0.1. FASTQ from NCBI SRA
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0.1. FASTQ from NCBI SRA
12:43
1.11. CEL files in limma GEO2R script
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1.11. CEL files in limma GEO2R script
13:08
1.10. Multiple groups and contrasts in limma
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1.10. Multiple groups and contrasts in limma
11:13
3.3. Time in DESeq2
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3.3. Time in DESeq2
15:40
6.1. Convert your Rmd script into a good looking report
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6.1. Convert your Rmd script into a good looking report
9:59
3.2. Using time (age) scale in limma
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3.2. Using time (age) scale in limma
20:31
3.1. edgeR with real age and gender. Will it work?
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3.1. edgeR with real age and gender. Will it work?
14:35
3.0. Using time scale in edgeR differential expression protocol
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3.0. Using time scale in edgeR differential expression protocol
16:28
Install Hisat2 mapping program on your Mac
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Install Hisat2 mapping program on your Mac
5:46
2.3. EnhancedVolcano and other Volcano plots
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2.3. EnhancedVolcano and other Volcano plots
12:32
2.2. My scripts on GitHub
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2.2. My scripts on GitHub
1:26
2.1. DEGreport for DESeq2
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2.1. DEGreport for DESeq2
17:19
2.0. Interactive illustrations in Glimma
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2.0. Interactive illustrations in Glimma
17:27
1.9. DESeq2 improved and with illustrations
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1.9. DESeq2 improved and with illustrations
16:52
1.8. DESeq2 in GEO2R
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1.8. DESeq2 in GEO2R
9:39
1.7. Recap of edgeR protocols.
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1.7. Recap of edgeR protocols.
11:19
1.6. Alternative glmFit based edgeR protocol
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1.6. Alternative glmFit based edgeR protocol
15:19
1.5. Classic edgeR protocol with one factor
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1.5. Classic edgeR protocol with one factor
13:51
1.4. Quick Start edgeR protocol with figures. Script based on the edgeR Quick Start lines
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1.4. Quick Start edgeR protocol with figures. Script based on the edgeR Quick Start lines
15:52
1.3.Quick Start edgeR. A protocol based on the Quick Start chapter in the edgeR users guide.
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1.3.Quick Start edgeR. A protocol based on the Quick Start chapter in the edgeR users guide.
14:12
1.2.limma edgeR voom
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1.2.limma edgeR voom
14:03
1.1. limma-edgeR script. 2nd version. Major lines taken from limma tutorial
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1.1. limma-edgeR script. 2nd version. Major lines taken from limma tutorial
20:45
1.0. Introduction to RNAseq expression data and scripts
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1.0. Introduction to RNAseq expression data and scripts
12:26
0.8. voom or vooma? What is it and how to use it in gene expression analysis
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0.8. voom or vooma? What is it and how to use it in gene expression analysis
15:14
0.7. Strange microarrays
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0.7. Strange microarrays
11:33
Installing STAR on Mac
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Installing STAR on Mac
7:29
Do not drink raw milk
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Do not drink raw milk
8:26
0.6. Comments to limma tutorial
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0.6. Comments to limma tutorial
11:47
0.5. Illustrations in GEO2R script for expression microarrays
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0.5. Illustrations in GEO2R script for expression microarrays
12:56
0.4. Add gene names to your results table
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0.4. Add gene names to your results table
17:46
0.3. Modifying GEO2R script
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0.3. Modifying GEO2R script
17:51
0.2.Introduction to Expression Microarrays
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0.2.Introduction to Expression Microarrays
12:26
0.1.Programming languages for biology
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0.1.Programming languages for biology
5:38
0.0.Further plans and intro to Gene Expression Data for Beginners
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0.0.Further plans and intro to Gene Expression Data for Beginners
6:05
Racist AI ?
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Racist AI ?
8:49
How to calculate significance of intersection in Venn diagram.
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How to calculate significance of intersection in Venn diagram.
11:41
R colors by numbers
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R colors by numbers
11:54
Blame UMAP?
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Blame UMAP?
10:24
Pizza to Euler diagram by converting pizza menu to the data table
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Pizza to Euler diagram by converting pizza menu to the data table
12:31
Test Venn drawing tools in R
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Test Venn drawing tools in R
7:54
Use WHO data to assess the gender bias per country. High surplus of man in Arab Gulf countries
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Use WHO data to assess the gender bias per country. High surplus of man in Arab Gulf countries
9:14
Brief History and limits of Venn diagram
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Brief History and limits of Venn diagram
7:42
logical exercise in R
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logical exercise in R
11:17
Making beeswarm with beeswarm library in R
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Making beeswarm with beeswarm library in R
9:38
Quick introduction to R. 6.0. The last part: Where from here?
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Quick introduction to R. 6.0. The last part: Where from here?
3:00
Quick introduction to R. 5.1. PepperPrice data. 3 ways of making boxplot in ggplot
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Quick introduction to R. 5.1. PepperPrice data. 3 ways of making boxplot in ggplot
15:53
Quick introduction to R. 5.0. Use PepperPrice data and do descriptive stats plots
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Quick introduction to R. 5.0. Use PepperPrice data and do descriptive stats plots
11:28
Quick introduction to R. 4.3. Illustrate Descriptive Statistics with WHO population data
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Quick introduction to R. 4.3. Illustrate Descriptive Statistics with WHO population data
13:21
Quick introduction to R. 4.2. Generate random data and try t-test. Why size matters?
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Quick introduction to R. 4.2. Generate random data and try t-test. Why size matters?
13:04
Quick introduction to R. 4.1. Why you need statistics? It is to save your money
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Quick introduction to R. 4.1. Why you need statistics? It is to save your money
12:18
Quick introduction to R. 3.1. What is different in ggplot? It is a structure of your data table
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Quick introduction to R. 3.1. What is different in ggplot? It is a structure of your data table
9:18
Quick Introduction to R. 3.0. Making plots from base graphics. This is coming with base R
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Quick Introduction to R. 3.0. Making plots from base graphics. This is coming with base R
19:45
Quick introduction to R. 2.4. Read the text file as text, make Wordcloud based on words frequencies
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Quick introduction to R. 2.4. Read the text file as text, make Wordcloud based on words frequencies
12:39
Quick introduction to R. 2.3. Write to file is symmetrical to a read function
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Quick introduction to R. 2.3. Write to file is symmetrical to a read function
8:06
Quick introduction to R. 2.2. Read data from excel
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Quick introduction to R. 2.2. Read data from excel
6:35
Quick introduction to R. 2.1. Read from .csv or .tsv files
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Quick introduction to R. 2.1. Read from .csv or .tsv files
14:23
Quick introduction to R. 1.6. Functions and libraries
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Quick introduction to R. 1.6. Functions and libraries
30:05
Quick introduction to R. 1.5. Variables continued: vectors, matrix, data frame
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Quick introduction to R. 1.5. Variables continued: vectors, matrix, data frame
20:58
Quick introduction to R. 1.4. Single variables
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Quick introduction to R. 1.4. Single variables
7:44
Quick introduction to R. 1.3. Your 1st script in R studio. 4 windows, what and where to write?
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Quick introduction to R. 1.3. Your 1st script in R studio. 4 windows, what and where to write?
11:59
Quick Introduction to R. 1.2. Tutorials
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Quick Introduction to R. 1.2. Tutorials
4:49
Quick introduction to R. 1.1. Install R R-studio
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Quick introduction to R. 1.1. Install R R-studio
8:38
Quick introduction to R. 1.0. Intro motivator
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Quick introduction to R. 1.0. Intro motivator
3:26