User: Thibault D.

gravatar for Thibault D.
Thibault D.440
Reputation:
440
Status:
Trusted
Location:
European Union
Last seen:
2 days, 7 hours ago
Joined:
2 years, 11 months ago
Email:
t**************@outlook.fr

Posts by Thibault D.

<prev • 49 results • page 1 of 5 • next >
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Comment: C: In simple words - what is k-mer??
... You do know many specific k-mers: an **hexamer** is a k-mer of length 6, a **dimer** is a k-mer of length 2. Etc. ...
written 19 days ago by Thibault D.440
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R formula in RNA-Seq differential analysis with multiple parameters
... Dear all, I'm working on differential genes/transcripts analysis in which I am interested in the effect of a treatment between patients, and their reaction across two age groups. I have a large number of patients in that study. Here, both age and treatment factors are interesting. However, I am ex ...
R sleuth deseq2 rna-seq statistics written 19 days ago by Thibault D.440 • updated 19 days ago by Devon Ryan74k
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Kissplice2refgenome does not handle # in the very begining of GTF files
... Hi, I've been using Kissplice pipeline lately to perform personnal RNASeq analysis. As I used the pipeline described in the official Kissplice documentation, I've come across an error. With the following command line: kissplice2refgenome-1.0.0/kissplice2refgenome -a genomeDir/gencode.v24.chr_ ...
gtf rna-seq kissplice written 10 weeks ago by Thibault D.440 • updated 10 days ago by Biostar ♦♦ 20
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Answer: A: How to add new operation terms to EDAM ontology
... Hi, You may open a new topic on the [Github][1] page. [1]: https://github.com/edamontology/edamontology/issues ...
written 6 months ago by Thibault D.440
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Comment: C: Volcano plot from Posterior probabilities instead of p-value
... If I do not multiply by -1, the volcano plot with PP would be reversed horizontally: the maximum value would be 0, the worst PP ...
written 14 months ago by Thibault D.440
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Volcano plot from Posterior probabilities instead of p-value
... Hi ! I'm currently diving into isoforms differential expression analysis results. I use the duo RSem-EBSeq to perform this work. I'd like to build a volcano plot of my data. RSem-EBseq returns posterior probabilities (PP) and no p-values (PV) at all. I am aware, that both PP and PV allows me to an ...
volcano plots posterior probability statistics written 14 months ago by Thibault D.440
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Comment: C: differential gene expression using sleuth
... I don't think so, I can not find anything within Sleuth to perform this kind of analysis. ...
written 20 months ago by Thibault D.440
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Comment: C: differential gene expression using sleuth
... I don't understand. Would you like to display your differential gene expression analysis with Sleuth style, or to perform this differential gene expression analysis with Sleuth, or ... ? ...
written 20 months ago by Thibault D.440
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Answer: A: differential gene expression using sleuth
... Hi, you can use [tximport][1], then [SARTools][2] to do such analysis. Please note, that the next DESeq2 update will include tximport as a function. Thibault [1]: https://github.com/mikelove/tximport [2]: https://github.com/PF2-pasteur-fr/SARTools ...
written 20 months ago by Thibault D.440
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Comment: C: RNAseq problems with tophat
... Hi clizama, Are you sure the error message you posted here is complete ? It seems truncated to me. Could we have the complete recording of tophat's logging, so that we'll be able to help you ? ...
written 21 months ago by Thibault D.440

Latest awards to Thibault D.

Appreciated 4 months ago, created a post with more than 5 votes. For A: Cuffmerge or Cuffcompare?!
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: Bowtie2 vs Tophat Whats the difference
Teacher 13 months ago, created an answer with at least 3 up-votes. For A: Annotate transcript isoforms from Cufflinks GTF with splicing types
Appreciated 18 months ago, created a post with more than 5 votes. For A: Cuffmerge or Cuffcompare?!
Popular Question 19 months ago, created a question with more than 1,000 views. For Why does TopHat return wrong XS-Strand attribute in BAM ?
Teacher 20 months ago, created an answer with at least 3 up-votes. For A: Annotate transcript isoforms from Cufflinks GTF with splicing types
Scholar 2.1 years ago, created an answer that has been accepted. For A: Bowtie2 reporting alignments count
Supporter 2.1 years ago, voted at least 25 times.
Teacher 2.2 years ago, created an answer with at least 3 up-votes. For A: Annotate transcript isoforms from Cufflinks GTF with splicing types
Teacher 2.5 years ago, created an answer with at least 3 up-votes. For A: Annotate transcript isoforms from Cufflinks GTF with splicing types

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