User: Chaimaa

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Chaimaa230
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3 years, 8 months ago
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Posts by Chaimaa

<prev • 211 results • page 1 of 22 • next >
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Comment: C: Is there any available code for DeSeq2 method in R?
... @Hi kevin, yes i need to understand how to use the package, i already read some papers about this method, this method can be used to do normalization and differential epression analysis with an adjusted p value and log2 FC , and that i wonder if there is any Desq2 code available here or any GitHub ...
written 12 weeks ago by Chaimaa230
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Comment: C: Is there any available code for DeSeq2 method in R?
... @ rpolicastro,Thank you too much, iIm cheking it now . ...
written 12 weeks ago by Chaimaa230
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Comment: C: Is there any available code for DeSeq2 method in R?
... @Kevin Blighe ,hi Kevin, happy to see you too!, yes I am okay now, you know with Corona we have lost a lot of people, and now i have to return to my research, how are you doing?, hope everything is going great with you? and thank you for your willing always to reply and support, really appreciate ...
written 12 weeks ago by Chaimaa230
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Comment: C: Is there any available code for DeSeq2 method in R?
... @rpolicastro Thank you too much, i wonder if there is also DESeq2 Rscript here on biostars it wi be more helpful to understand how to deal with the possible parameters, given that my data is list of genes as rows and list of samples as columns ...
written 12 weeks ago by Chaimaa230
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Is there any available code for DeSeq2 method in R?
... Hi guys, Is there any available code for DeSeq2 method in R here, please share it with me if that possible? I want to reproduce the code to extract the differentially expressed genes (DEG) for a sequence of cancer stages. Appreciate any help! ...
R deseq2 written 12 weeks ago by Chaimaa230 • updated 12 weeks ago by rpolicastro2.3k
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Comment: C: About TCGA CNV data preprocessing
... @ Kevin Blighe, Hi dear Kevin, Wow! Great job, I'm really proud of you, i will read the tutorial carefully, Thank you very very much! ...
written 5 months ago by Chaimaa230
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Comment: C: About TCGA CNV data preprocessing
... @Kevin Blighe , Hi dear Kevin, thanks for your reply, that thread i already check it and it works well for me, but i mean the heatmap visualization how you make those beautiful clusters, As far i know you have used ComplexHeatmap package. For the Dendrograms you used Euclidean distance and Ward’s li ...
written 5 months ago by Chaimaa230
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Comment: C: About TCGA CNV data preprocessing
... @Kevin Blighe , Hi dear Kevin, how you generated these 2 heatmaps please? i was wondering if the code that you used for the genration is availaibe and if you can share with me? i wloud like to apply it on my data, if that possible? ...
written 5 months ago by Chaimaa230
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Comment: C: About TCGA CNV data preprocessing
... Thank you, i fix it heat <- data.frame(paste (data.frame(recCNV.Template.GR)$seqnames, data.frame(recCNV.Template.GR)$start, data.frame(recCNV.Template.GR)$end, sep = '.'), data.frame(recCNV.Template.GR)) ...
written 5 months ago by Chaimaa230
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Comment: C: About TCGA CNV data preprocessing
... Hi @Kevin Blighe, Dear Kevin , is there any mistake in this command ? it doesnt work, with me heat <- data.frame( pastedata.framerecCNV.Template.GR)$seqnames, data.framerecCNV.Template.GR)$start, data.framerecCNV.Template.GR)$end, sep = '.'), ...
written 5 months ago by Chaimaa230

Latest awards to Chaimaa

Popular Question 4 months ago, created a question with more than 1,000 views. For How to calculate the Pearson correlation coefficients between a list of genes?
Popular Question 4 months ago, created a question with more than 1,000 views. For What's the interpretation behind Pathway enrichment analysis
Great Question 11 months ago, created a question with more than 5,000 views. For How to extract the list of genes from TCGA CNV data
Popular Question 21 months ago, created a question with more than 1,000 views. For What's Pathway Enrichment Analysis?
Popular Question 21 months ago, created a question with more than 1,000 views. For how to link list of genes using PPI networks?
Popular Question 21 months ago, created a question with more than 1,000 views. For What's the interpretation behind Pathway enrichment analysis
Popular Question 2.0 years ago, created a question with more than 1,000 views. For What's Pathway Enrichment Analysis?
Voter 2.0 years ago, voted more than 100 times.
Centurion 2.1 years ago, created 100 posts.
Popular Question 2.2 years ago, created a question with more than 1,000 views. For What's Pathway Enrichment Analysis?
Popular Question 2.5 years ago, created a question with more than 1,000 views. For What's Pathway Enrichment Analysis?
Popular Question 3.4 years ago, created a question with more than 1,000 views. For What's Pathway Enrichment Analysis?
Supporter 3.4 years ago, voted at least 25 times.
Rising Star 3.4 years ago, created 50 posts within first three months of joining.

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