User: Aynur

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Aynur10
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1 month, 2 weeks ago
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a**********@ku.edu.tr

Posts by Aynur

<prev • 39 results • page 1 of 4 • next >
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Comment: C: Qualimap RNA-Seq Report High Intronic Coverage Explanation
... Thank you. I am using DESeq2 for DEGs and IsoformSwitchanalyzerr for isoform identification. ...
written 16 days ago by Aynur10
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Qualimap RNA-Seq Report High Intronic Coverage Explanation
... Hello, I have my mouse RNA-Seq mapped to the mouse genome using STAR Aligner. I performed the Qualimap RNA-seq Quality assessment. Here is my overall result. ...
assembly rna-seq R written 19 days ago by Aynur10 • updated 16 days ago by JC11k
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Workflow/pipeline for detecting isoforms/alternative splicing
... Hello, I am doing a DEG analysis using the STAR-HTSeq-DESeq2 pipeline on mouse RNA-seq. I am also interested to detect isoform or alternative splices. I read this post [a tool for alternative splicing][1]. But it seems to be an old post, and I also checked MATS, but I have a hard time installing tho ...
R next-gen rna-seq sequencing written 28 days ago by Aynur10 • updated 27 days ago by Nathan Salomonis70
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Comment: C: RNA-Seq Data Quality Assesment- Heatmap and PCA Interpretation
... Thank you for taking the time to give this thorough answer. I appreciate it. ...
written 4 weeks ago by Aynur10
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RNA-Seq Data Quality Assesment- Heatmap and PCA Interpretation
... I am following STAR-HTSeq -DESeq2 pipeline for my mouse RNA-Seq data analysis. I am concerned about heatmap and PCA results. I am concerned about sample b and I was expecting it should not cluster with the control group. Am I missing something here? a, b,c,d are different treatment conditions and ...
sequence R next-gen rna-seq written 4 weeks ago by Aynur10 • updated 4 weeks ago by antonioggsousa1.4k
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Comment: C: RNA-Seq data Quality Assessment- BoxPlot Interpretation
... Alright. I already had my FastQC, and STAR aligning. I was making these plots to see between sample distribution prior to DEG analysis with DESeq2. These plots are mentioned in tutorials, and I am not sure if it is needed or not. If this is not informing me of anything I should be aware of, then ...
written 4 weeks ago by Aynur10
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RNA-Seq data Quality Assessment- BoxPlot Interpretation
... Hello, Please help me with understanding my boxplot. Here is the boxplot, I got for my RNA-Seq data. ![Box Plot][1] My data is head(rawCountTable) con-1 con-2 a-1 a-2 b-1 b-2 c-1 c-2 d-1 d-2 ENSMUSG0000000000 0 0 0 0 ...
R forum alignment rna-seq sequencing written 4 weeks ago by Aynur10 • updated 4 weeks ago by rpolicastro1.7k
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Comment: C: For loop error for merging HTSeq counts
... Hello, Can you please open it now? Thanks. ...
written 5 weeks ago by Aynur10
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Comment: C: For loop error for merging HTSeq counts
... Sorry for the inconvenience. Thank you for pointing out. Let me try to make the post readable first. ...
written 5 weeks ago by Aynur10
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Comment: C: For loop error for merging HTSeq counts
... I just learned this HTSeq and made all files. Thats why. ...
written 5 weeks ago by Aynur10

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