User: mohammedtoufiq91

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Posts by mohammedtoufiq91

<prev • 108 results • page 1 of 11 • next >
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Comment: C: How to visualize Boxplot with using fold change values in ggplot2 in R
... Hi @rpolicastro , thank you very much. ...
written 4 hours ago by mohammedtoufiq91110
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Comment: C: How to visualize Boxplot with using fold change values in ggplot2 in R
... Hi @rpolicastro, thank you very much for the inputs. Another question, I wanted to know if there is a way to draw horizontal lines over the Boxplot to indicate or label the p-value significance values as represented in the example plot or this should be manually created. ![](https://i.imgur.com/IH ...
written 13 hours ago by mohammedtoufiq91110
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How to visualize Boxplot with using fold change values in ggplot2 in R
... Hi, I have a previously created Boxplots using normalized log2 data using `ggplot2` library in R. Now, I am trying to create the Boxplot using fold change values (example data below) in ggplot2. Could you please assist me how to do the same or provide any useful resources. dput(head(Data)) ...
boxplot R ggplot2 fold change written 1 day ago by mohammedtoufiq91110 • updated 1 day ago by rpolicastro710
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Comment: C: Batch effect identification using PCA
... Thank you for the comments @Kevin Blighe. ...
written 8 weeks ago by mohammedtoufiq91110
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Comment: C: Batch effect identification using PCA
... Thank you for the inputs @Kevin Blighe. I will look the annotations for the yellow samples that grouped at the top. Regarding this, `Evidence against there being a batch effect is illustrated by many blue and yellow samples grouping together`, if the samples are grouped that means it has batch effe ...
written 8 weeks ago by mohammedtoufiq91110
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Batch effect identification using PCA
... Hi, I have a question about batch effect. I used the qRT-PCR transcript targeted assay with around 300 genes with 160 samples (included 30 samples from batch 1 and 130 samples from batch 2). Batch 1 experiment and Batch 2 experiment was performed on different days. I used normalized log2-scale rela ...
targeted assay R pca qrt-pcr batch effect written 8 weeks ago by mohammedtoufiq91110
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Comment: C: PCA plot on genes and color by batch and plate information
... @RamRS, please find the data below: head(Neg_Dct_v1) S1_1 S1_2 S1_3 S1_4 S1_5 S1_6 Batch "Batch_1" "Batch_1" "Batch_1" "Batch_2" "Batch_2" "Batch_2" Plate "Plate_1" "Plate_2" "Plate_1" "Plate_2" " ...
written 8 weeks ago by mohammedtoufiq91110
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Comment: C: PCA plot on genes and color by batch and plate information
... @ATpoint and RamRS, thank you for the reply. The solution provided here is PCA on sample level. However, I am looking to plot PCA on genes and label them by Batch and Plate information. Genes on rows and samples on columns. Basically see cluster formation of genes on PCA with Batch and Plate level i ...
written 8 weeks ago by mohammedtoufiq91110
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PCA plot on genes and color by batch and plate information
... Hi, I have a question about plotting PCA on genes, I have samples in rows with associated annotations (Batch and Plate information) and genes in the columns. I have performed PCA on samples and I am familiar with it. However, I am interested to plot PCA on genes now and color by batch and plate inf ...
ggfortify ggplot2 pca factoextra reshape2 written 8 weeks ago by mohammedtoufiq91110
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Comment: C: Unable to locate libraries in latest version of R 4.0.0
... Thank you very much @Prakash. ...
written 9 weeks ago by mohammedtoufiq91110

Latest awards to mohammedtoufiq91

Centurion 8 weeks ago, created 100 posts.
Popular Question 6 months ago, created a question with more than 1,000 views. For Identify adapter sequences for trimming from Illumina paired end fastq files
Popular Question 11 months ago, created a question with more than 1,000 views. For Identify adapter sequences for trimming from Illumina paired end fastq files
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