User: Reza
Reza • 0
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Posts by Reza
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... Dear all,
I have RNA seq data from different tissues of one plant with the reference genome. I am trying to find out target genes of lncRNAs as cis-acting target genes. How can I identify and separate the target genes within 100 kb upstream or downstream of lncRNAs? Are there any codes or packages ...
written 3 days ago by
Reza • 0
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... Dear all,
I have RNA seq data from different tissues of one plant with the reference genome.
I am trying to find out target genes of lncRNAs as cis-acting target genes.
How can I identify and separate the target genes within 100 kb upstream or downstream of lncRNAs? Are there any codes or packages ...
written 9 days ago by
Reza • 0
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1
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376
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1
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... Hi Wouter,
I assembled the raw reads into transcripts (contigs) and used it as reference genome. ...
written 18 months ago by
Reza • 0
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... Thank you for your answer. ...
written 18 months ago by
Reza • 0
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376
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6 follow
1
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... Hello everybody,
I have RNAseq data from species that the genome reference is not available and I'd like detect lncRNA.
Do you think that this is possible?
Thanks,
...
written 18 months ago by
Reza • 0
• updated
16 months ago by
grant.hovhannisyan • 2.0k
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... Hi everyone,
I want to do WGCNA and estimate the correlation of modules with clinical traits. The clinical information includes nominal variable with more than two levels (not binary). How I can design and create clinicaltrait.txt file? I have attached a screenshot of the trait file, please have a ...
written 19 months ago by
Reza • 0
• updated
19 months ago by
Kevin Blighe ♦ 69k
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... Hi everyone,
I performed recursive SVM classification for my data by “***RSVM.Anal(mSet, 10)***” and “***PlotRSVM.Classification***” functions of **MetaboAnalystR** package and error rates of different subsets were determined such as this figure ![enter image description here][1].
Is there a way ...
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... Hi everyone,
I want to identify differentially co-expressed gene modules for two different species by **DiffCoEx** according to [this][1] article.
I have used RMA method to normalize data for two datasets.
How to prepare and organize data for WGCNA?
Thanks
[1]: https://journals.plos.org/plo ...
written 2.1 years ago by
Reza • 0
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... Hi everyone,
I'm using rMATS for alternative splicing analysis. I want to visualize the output by maser 0.99.16 but encountered the following error.
Error in .Call2("solve_user_SEW0", start, end, width, PACKAGE = "IRanges") :
solving row 4462: range cannot be determined from the ...
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5 follow
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... Hi everyone,
I'm trying to run rMATS to get alternative splicing but encountered some errors.
Errors found:
==========
Done processing each gene from dictionary to compile AS events
Found 14962 exon skipping events
Found 1100 exon MX events
Found 28836 alt SS events
There ...
written 2.4 years ago by
Reza • 0
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For gene expression correlation, FPKM, WGCNA
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