User: anpham

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anpham0
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Posts by anpham

<prev • 14 results • page 2 of 2 • next >
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remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
... I'd like to remove the genes on the X and Y chromosomes from my human RNA-seq data before doing differential analysis using DESeq2. I've looked through the RNA-seq Workflow and DESeq2 manuals but didn't see this as an option. Any help in performing this step and still using the DESeq2 or RNA-seq Wor ...
rnaseq deseq2 written 4.3 years ago by anpham0 • updated 13 months ago by ta_awwad10
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Adding gene names to differential gene expression results in DESeq2
... The codes and instructions for annotating gene names to the result table for differential gene expression analysis in DESeq2 seem to be for using Ensembl as the reference genome in the alignment step. I'm wondering if there are instructions/codes for annotating gene names if I used UCSC hg19 as the ...
deseq2 differential gene expression gene names written 4.4 years ago by anpham0 • updated 4.4 years ago by Michael Love24k
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how to handle missing data for SampleTable in DESeq2
... I have RNAseq data for human subjects and plan to do a differential gene expression analysis using DESeq2. The covariates I plan to use include sex, age, genotypic principal components, and substance use. However, I have missing data for principal components and substance use and would like to know ...
deseq2 sample_table missing data written 4.4 years ago by anpham0 • updated 7 months ago by g.wang20
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meta-analysis of RNA-seq data
... I have RNA-seq data for human subjects including African American, Caucasian, and Hispanic participants. I plan to do differential expression analysis (using deseq2) in each group and combine the results using meta-analysis. I'd appreciate recommendations for a good package for meta-analysis. Thanks ...
deseq2 rna-seq written 4.5 years ago by anpham0

Latest awards to anpham

Popular Question 23 months ago, created a question with more than 1,000 views. For remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
Popular Question 23 months ago, created a question with more than 1,000 views. For Adding gene names to differential gene expression results in DESeq2
Popular Question 23 months ago, created a question with more than 1,000 views. For how to handle missing data for SampleTable in DESeq2
Popular Question 2.8 years ago, created a question with more than 1,000 views. For DESeq2 Error: ncol(countData) == nrow(colData) is not TRUE
Popular Question 2.8 years ago, created a question with more than 1,000 views. For remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
Popular Question 2.8 years ago, created a question with more than 1,000 views. For Adding gene names to differential gene expression results in DESeq2

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