User: rahel14350

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rahel1435020
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New User
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United States
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2 days, 9 hours ago
Joined:
2 years, 12 months ago
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Posts by rahel14350

<prev • 45 results • page 1 of 5 • next >
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Comment: C: error in using LOLA enrichment analysis in RnBeads
... I changed the version and unfortunately, I still have the same error! ...
written 3 days ago by rahel1435020
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Comment: C: error in using LOLA enrichment analysis in RnBeads
... sorry, edited now! even now I still have the error! ...
written 5 days ago by rahel1435020
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Comment: C: error in using LOLA enrichment analysis in RnBeads
... Here is: > sessionInfo() R version 3.4.4 (2018-03-15) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Ubuntu 16.04.4 LTS Matrix products: default BLAS: /usr/lib/libblas/libblas.so.3.6.0 LAPACK: /usr/lib/lapack/liblapack.so.3.6.0 locale: [1 ...
written 5 days ago by rahel1435020
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Comment: C: error in using LOLA enrichment analysis in RnBeads
... Many thanks for your prompt reply. The last version is 1.12.1 and I have the same Error there as well. I also have LOLA installed and included that one too (require(LOLA)) but still the same error is happening. ...
written 5 days ago by rahel1435020
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Comment: C: error in using LOLA enrichment analysis in RnBeads
... I want to start RnBeads full pipeline and in the beginning with setting rnb.options, I have this error. Here is my options: >rnb.options( exploratory.intersample = FALSE, exploratory.region.profiles = NULL, differential.enrichment.go=T, differential.enric ...
written 5 days ago by rahel1435020 • updated 5 days ago by WouterDeCoster28k
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error in using LOLA enrichment analysis in RnBeads
... Dear all, I am doing Diff. meth. analysis for RRBS data using RnBeads. I am interested to do enrichment analysis from Lola package here but I have this error: >Error in rnb.getOption(differential.enrichment.lola = TRUE) : >unused argument (differential.enrichment.lola = TRUE) Can y ...
enrichment lola rrbs rnbeads written 5 days ago by rahel1435020 • updated 3 days ago by WouterDeCoster28k
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Comment: C: annotation of RRBS DMRs in RnBeads or other packages
... I used package annotatr and it helped me. https://bioconductor.org/packages/release/bioc/vignettes/annotatr/inst/doc/annotatr-vignette.html ...
written 4 months ago by rahel1435020
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annotation of RRBS DMRs in RnBeads or other packages
... I used the mean methylation value and Wilcox test to define differentially methylated regions between two groups of RRBS data. Is there any way that I could import the Granges from DMRs to RnBeads to annotate them there? Or do you have any suggestion for which package I could use only for annotation ...
annotation dmrs rrbs rnbeads granges written 4 months ago by rahel1435020
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filtering (deleting) the overlapped genomic ranges from two GRangelist using findOverlaps
... Dear all, I have two Grnage list (gr2=repeatmask.hg38 from UCSC; gr1=CpGs methylation regions from RRBS data). I want to filter out the CpGs that are in the genome repeated regions. I did it like this, do you think if it is correct? > hits <- findOverlaps(gr2, gr1) > head(hits) Hits obj ...
genomicranges findoverlap overlapped written 6 months ago by rahel1435020
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KNIME workflow for data mining of protein expression data from TCGA
... Dear all and Dear https://www.biostars.org/u/30/ Do you know if there Is any workflow available in KNIME for data mining using protein expression data from TCGA to identify biomarkers? Many thanks in advance, Rahel ...
knime data mining protein biomarker tcga written 9 months ago by rahel1435020

Latest awards to rahel14350

Scholar 9 months ago, created an answer that has been accepted. For A: RRBS data analysis using RnBeads give Scan() error

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