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Can I perform ANOVA test on rlog data of RNA sequencing counts?
rlog ANOVA
updated 18 days ago by 3.3k • written 18 days ago by ▴ 140
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1
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350
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Comment: Comment: What is the difference between vst and rlog to perform PCA ?
21 days ago by Amr ▴ 140
4
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3
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350
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What is the difference between vst and rlog to perform PCA ?
rlog PCA vsd
updated 21 days ago by 72k • written 21 days ago by ▴ 140
0
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0
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583
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Comment: Comment: t-test to check if the cancer samples are significantly different than the norma
22 days ago by Amr ▴ 140
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1
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583
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Comment: Comment: t-test to check if the cancer samples are significantly different than the norma
22 days ago by Amr ▴ 140
0
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1
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583
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Comment: Comment: t-test to check if the cancer samples are significantly different than the norma
22 days ago by Amr ▴ 140
4
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6
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583
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t-test to check if the cancer samples are significantly different than the normal samples using R
t-test independent
22 days ago by Amr ▴ 140
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0
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692
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Comment: Comment: What does it mean in GSEA when HALLMARK_UV_RESPONSE_DN is upregulated ? how it's
4 months ago by Amr ▴ 140
4
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6
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692
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What does it mean in GSEA when HALLMARK_UV_RESPONSE_DN is upregulated ? how it's down and upregulated?
GSEA HALLMARK
4 months ago by Amr ▴ 140
0
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1
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692
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Comment: Comment: What does it mean in GSEA when HALLMARK_UV_RESPONSE_DN is upregulated ? how it's
4 months ago by Amr ▴ 140
0
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0
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157
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How can two contradicted gene sets be enriched in a cancer sample in GSEA analysis?
HALLMARK_UV_RESPONSE_UP GSEA
updated 4 months ago by 72k • written 4 months ago by ▴ 140
2
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1
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278
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Why we check adjusted p-value not p-value to check whether we reject the null hypothesis or not in DESeq2?
p-value DESeq2
updated 4 months ago by 72k • written 4 months ago by ▴ 140
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0
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236
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KEGG Pathway pathway in cancer
cancer KEGG
4 months ago by Amr ▴ 140
1
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2
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505
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Can I get the read length from the count data file in R? How?
read_length sequencing
updated 5 months ago by 11k • written 5 months ago by ▴ 140
0
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1
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493
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Comment: Comment: How to filter genes inside a normalized count data file based on p-adjust value?
5 months ago by Amr ▴ 140
0
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1
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493
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Comment: Comment: How to filter genes inside a normalized count data file based on p-adjust value?
5 months ago by Amr ▴ 140
0
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1
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493
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Comment: Comment: How to filter genes inside a normalized count data file based on p-adjust value?
5 months ago by Amr ▴ 140
0
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7
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493
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How to filter genes inside a normalized count data file based on p-adjust value?
normalization p-value DESeq2
updated 5 months ago by 39k • written 5 months ago by ▴ 140
0
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1
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292
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Comment: Comment: What is the difference between Frame shift ins mutation and In frame ins mutatio
5 months ago by Amr ▴ 140
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3
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292
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What is the difference between Frame shift ins mutation and In frame ins mutation?
mutation Frameshift DNA
updated 5 months ago by 39k • written 5 months ago by ▴ 140
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2
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748
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Comment: Comment: How to connect with MobaXterm?
5 months ago by Amr ▴ 140
5
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7
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748
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6 follow
How to connect with MobaXterm?
login mobaxterm ssh offtopic
updated 5 months ago by 39k • written 5 months ago by ▴ 140
0
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0
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748
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Comment: Comment: How to connect with MobaXterm?
5 months ago by Amr ▴ 140
0
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0
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166
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mitch analysis report priority by standard deviation
mitch standard_deviation
6 months ago by Amr ▴ 140
9
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19
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3.3k
views
6 follow
Relative frequencies of the nucleotides in Fasta files
fasta
updated 3 months ago by ▴ 120 • written 2.2 years ago by ▴ 140
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0
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644
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Comment: Comment: How to plot the relative abundance of the most abundant genera?
6 months ago by Amr ▴ 140
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2
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644
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How to plot the relative abundance of the most abundant genera?
relative_abundance taxa.mean.plot mean_relative_abundance ggplot2 taxonomic R
6 months ago by Amr ▴ 140
0
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1
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453
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Comment: Comment: How to clean taxonomy file for microbiome analysis in R?
6 months ago by Amr ▴ 140
0
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1
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453
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Comment: Comment: How to clean taxonomy file for microbiome analysis in R?
6 months ago by Amr ▴ 140
2
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5
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453
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How to clean taxonomy file for microbiome analysis in R?
taxonomy microbiome_analysis
6 months ago by Amr ▴ 140
0
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1
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402
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Comment: Comment: How to visualize taxonomic data based on mean relative abundance?
6 months ago by Amr ▴ 140
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3
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402
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How to visualize taxonomic data based on mean relative abundance?
relative_abundance taxa.mean.plot mean_relative_abundance ggplot2 taxonomic
updated 6 months ago by ▴ 810 • written 6 months ago by ▴ 140
0
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0
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165
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How to plot the relative abundance of the most abundant genera ? to visualize the taxonomic composition?
relative_abundance barchart abundance mean taxonomic
6 months ago by Amr ▴ 140
0
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0
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354
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Comment: Comment: How to custom colors in plot_ordination?
6 months ago by Amr ▴ 140
0
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2
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354
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How to custom colors in plot_ordination?
PCoA plot_ordination beta_diversity
6 months ago by Amr ▴ 140
0
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1
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503
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How to change colors in boxplot in R?
ggplot2 box-plot
updated 6 months ago by 39k • written 6 months ago by ▴ 140
2
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4
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1.1k
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How to make alpha diversity boxplot?
alpha_diversity taxa ASV box_plot shannon
updated 6 months ago by ▴ 540 • written 6 months ago by ▴ 140
0
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1
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1.1k
views
Comment: Comment: How to make alpha diversity boxplot?
6 months ago by Amr ▴ 140
0
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0
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1.1k
views
Comment: Comment: Error input data must be numeric in R, how to solve it?
6 months ago by Amr ▴ 140
0
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1
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1.1k
views
Comment: Comment: Error input data must be numeric in R, how to solve it?
6 months ago by Amr ▴ 140
4
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7
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1.1k
views
Error input data must be numeric in R, how to solve it?
error_numeric ASV_file R
6 months ago by Amr ▴ 140
0
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0
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1.1k
views
Comment: Comment: Error input data must be numeric in R, how to solve it?
6 months ago by Amr ▴ 140
0
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0
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1.1k
views
Comment: Comment: Error input data must be numeric in R, how to solve it?
6 months ago by Amr ▴ 140
0
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3
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802
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How to plot all enrichment plots from GSEA in one single plot in python or R?
R python ES GSEA
updated 5 months ago by 39k • written 7 months ago by ▴ 140
0
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0
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1.3k
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Comment: Comment: Why we use adjusted p-value not p-value in differential gene expression analysis
6 months ago by Amr ▴ 140
4
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7
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1.3k
views
Why we use adjusted p-value not p-value in differential gene expression analysis ?
p-value adjusted-p-value DGE DESeq2
6 months ago by Amr ▴ 140
0
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0
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1.3k
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Comment: Comment: Why we use adjusted p-value not p-value in differential gene expression analysis
6 months ago by Amr ▴ 140
0
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1
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1.3k
views
Comment: Comment: Why we use adjusted p-value not p-value in differential gene expression analysis
6 months ago by Amr ▴ 140
0
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2
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406
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Is there a setting in GSEA software to filter counts less than 10 before go for GSEA analysis?
GSEA
updated 6 months ago by ▴ 100 • written 8 months ago by ▴ 140
2
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1
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298
views
How to change the design DESeqDataSet to calculate log2foldChange in different way?
design DESeqDataSetFromMatrix condition DESeq2
6 months ago by Amr ▴ 140
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