User: mohammedtoufiq91

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Posts by mohammedtoufiq91

<prev • 105 results • page 1 of 11 • next >
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Comment: C: Batch effect identification using PCA
... Thank you for the comments @Kevin Blighe. ...
written 7 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 7 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 7 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 7 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 7 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 7 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 8 weeks ago by mohammedtoufiq91110
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Comment: C: Unable to locate libraries in latest version of R 4.0.0
... @cpad0112, thank you for your message. Please find the new and old paths as given below. **Version 4.0.0** > .libPaths() [1] "/Users/mtoufiq/Library/R/4.0/library" [2] "/Library/Frameworks/R.framework/Versions/4.0/Resources/library" **Version 3.5** > . ...
written 9 weeks ago by mohammedtoufiq91110
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Unable to locate libraries in latest version of R 4.0.0
... Hi, I recently installed R version to R-4.0.0, after launching R Studio and running a script I am unable to find the libraries that were installed in the previous version of R-3.5. Please let me know if its possible to locate and set these libraries whenever R is launched or do I have again re-inst ...
r studio R library installation missing written 9 weeks ago by mohammedtoufiq91110 • updated 8 weeks ago by Biostar ♦♦ 20
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Comment: C: Error while using ComplexHeatmap
... @Kevin Blighe , thank you so much. The issue has been resolved after upgrading both R and ComplexHeatmap. ...
written 9 weeks ago by mohammedtoufiq91110

Latest awards to mohammedtoufiq91

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