User: chetana

gravatar for chetana
chetana30
Reputation:
30
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New User
Location:
San Diego
Last seen:
5 days, 20 hours ago
Joined:
1 year, 1 month ago
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c************@gmail.com

Posts by chetana

<prev • 17 results • page 1 of 2 • next >
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Comment: A: RShiny interactive volcano plots
... `ui <- fluidPage( titlePanel("Volcano Plotly"), fluidRow( column( width = 10, plotlyOutput("volcanoPlot", height = "500px") ), column( width = 8, dataTableOutput("selectedProbesTable") ) ) ...
written 6 days ago by chetana30
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Comment: C: RShiny interactive volcano plots
... Thanks for your reply Steve and sorry if I was not clear asking the question. Here I include the headers of the dataframe as an example as the data is really huge. ***probe gene_symbol Timepoint0_FC Timepoint0_P Timepoint3_FC Timepoint3_P Timepoint7_F Timepoint7_P*** Here FC is the foldchange ...
written 6 days ago by chetana30
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Comment: C: RShiny interactive volcano plots
... I'm happy to explain, Michael. Bioinformatics is an interdisciplinary field and according to me if we're trying to solve a biological problem with a programmatic approach I consider it to be a bioinformatics problem. Since I'm working with biological data/ expression data I think it is relevant to c ...
written 6 days ago by chetana30
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RShiny interactive volcano plots
... Hi everyone, I'm a newbie to Rshiny and I'm trying to make a Rshiny app using this link mentioned here ([https://bioinformatics-core-shared-training.github.io/shiny-bioinformatics/interactive-plots][1]), it uses ggplot+plotly to make the plot interactive. I want to try it on my timepoint data and h ...
R rshiny differential expression bioinformatics written 28 days ago by chetana30 • updated 5 days ago by h.mon9.6k
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Comment: C: WGCNA: Error plotting TOM
... It's a cluster that I'm running it on and RAM is around 160GB. ...
written 4 months ago by chetana30
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WGCNA: Error plotting TOM
... Hi everyone, I've been working with micro array gene expression data and have been using WGCNA to get the co-expression network analysis. I'm working with 28K genes with their expression data across 36 samples. When I'm trying to plot TOM from just the expression data I get an error which I'm not s ...
wgcna expression R written 4 months ago by chetana30
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Comment: C: Metagenome Read Simulators
... Thanks for the reply Brian. Is there a way to know the coverage of each bacteria in my metagenome? Thank you. ...
written 4 months ago by chetana30
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Comment: C: Metagenome Read Simulators
... @Brian Bushnell : I haven't used BBMap before. But can you please tell how it works when I'm trying to make a simulated metagenome from 10 whole bacterial geneomes and want different abundances of each genome in the metagenome. Thank you so much. ...
written 4 months ago by chetana30
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Comment: C: Heatmap for RNA-Seq data
... I'm sorry if I was not clear, I already have my data grouped into clusters in an another column in the text file. So my input data would be Genes, Clusters, Sample1, Sample2, Sample3,...so I want clusters vs samples on the heatmap. The paper doesn't mentioned about the data which has already been cl ...
written 5 months ago by chetana30
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Comment: C: Heatmap for RNA-Seq data
... Sorry about that, here is the link: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4489295/figure/F2/ ...
written 5 months ago by chetana30

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