Showing : R • reset
1
vote
2
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729
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Identifying correlation between two variables using Limma
limma r
updated 7.1 years ago by 53k • written 7.1 years ago by • 0
1
vote
6
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3.0k
views
DESeq2 replicates management
deseq2 bioconductor R
updated 7.1 years ago by 43k • written 7.1 years ago by • 0
0
votes
2
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4.3k
views
DESeqDataSetFromMatrix Unavailable for R Version 3.5.0
DESeq2 deseqdatasetfrommatrix r new version
updated 7.1 years ago by 43k • written 7.1 years ago by • 0
4
votes
1
reply
14k
views
The latest version of R is 3.5.1 and it is not compatible with many Bioconductor packages.
R deseq tcgabiolinks
7.1 years ago ansari.sarabio • 0
0
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5
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3.0k
views
DNA methylation analysis without raw data IDAT files
r illimina 450k methylation minfi champ tcga
updated 7.1 years ago by ▴ 290 • written 7.1 years ago by ▴ 60
1
vote
2
replies
2.4k
views
Trouble Installing Bioconductor Basic Packages
R bioclite installation problem linuxmint virtualbox
updated 7.2 years ago by 68k • written 7.2 years ago by • 0
0
votes
1
reply
2.3k
views
R says include dir is empty, but it's not.
R bioconductor biocinstaller package installation
updated 7.2 years ago by 25k • written 7.2 years ago by ▴ 20
0
votes
1
reply
1.9k
views
Install Bioconductor package locally/temporarily
R rstudio package installation
updated 7.2 years ago by 25k • written 7.2 years ago by ▴ 20
0
votes
8
replies
2.7k
views
DESeq2 Multi factor, multi time point comparison design formula
rna-seq deseq2 deseq R
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
3
votes
4
replies
1.0k
views
Compare in cont.matrix part
microarray R
updated 7.2 years ago by 53k • written 7.2 years ago by ▴ 10
1
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3
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1.3k
views
remove NAs values from gset
microarray R
updated 7.2 years ago by 68k • written 7.2 years ago by ▴ 10
1
vote
4
replies
1.4k
views
Remove box frame from vennDiagram plot in limma
Limma venndiagram r
updated 3.8 years ago by • 0 • written 7.2 years ago by • 0
0
votes
3
replies
1.9k
views
Job: Tutor Wanted: help with R statistical analysis (must be familiar with Bioconductor)
bioconductor ALL R Job
7.2 years ago detroit.drive • 0
0
votes
0
replies
1.2k
views
Job: Open position for a bioinformatician in Copenhagen
R NGS Job
7.2 years ago gretchen.repasky ▴ 20
1
vote
5
replies
1.7k
views
Tidyverse masking Genefilter after BioConductor update
bioconductor R tidyverse IlluminaHumanMethylationEPICanno.ilm10b4.hg19.
updated 7.2 years ago by 68k • written 7.2 years ago by • 0
0
votes
1
reply
1.1k
views
DESeq2 intstallation error on fedora
deseq2 R fedora qiime
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
0
votes
1
reply
991
views
motifs order on importing the motifs from bigWig file
R rtracklayer data import
updated 7.2 years ago by ★ 11k • written 7.2 years ago by • 0
2
votes
4
replies
735
views
Extract x and y values from plotDispEsts
R deseq2
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
0
votes
4
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2.4k
views
DESeq2 I installed from latest Bionconductor version is still old version
deseq2 R bioconductor
updated 7.2 years ago by ★ 1.1k • written 7.2 years ago by • 0
0
votes
7
replies
3.0k
views
Compute average score across multiple bed files
chip-seq granges R bed files
updated 7.2 years ago by • 0 • written 7.2 years ago by • 0
0
votes
1
reply
1.1k
views
Minci fails to install on Linux CentOS
R minfi package installation
7.2 years ago barbaraheude • 0
0
votes
0
replies
937
views
How to fix the error in "meshes" package?
meshes R bioconductor software error
7.2 years ago mahmood.amiri225 • 0
1
vote
8
replies
2.4k
views
Design matrix for regressing gene expression on a continuous variable - age
limma lmfit design matrix r
updated 7.2 years ago by ★ 29k • written 7.2 years ago by • 0
0
votes
4
replies
1.9k
views
Guidance to handle .CEL file in R
R .cel fiels microarray mouse4302
7.2 years ago aacharya • 0
2
votes
6
replies
2.4k
views
error reading GSE using getGEO()
r geo getgeo
7.2 years ago jaleh.amo • 0
2
votes
2
replies
5.2k
views
AnnotatedDataFrame is not a defined class
annotatedDataFrame R Biobase
10.9 years ago • updated 7.2 years ago nonCodingGene ▴ 10
0
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2
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1.7k
views
MethylKit DSS Package
R bioconductor methylation methylkit
updated 7.2 years ago by ▴ 20 • written 7.2 years ago by • 0
0
votes
1
reply
2.3k
views
DeSeq2 installation on ubuntu fails
deseq2 R ubuntu bioconductor rstudio
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
1
vote
5
replies
2.1k
views
How do I stop DESeq2 from loading and additional errors related to the package.
r deseq2 error
updated 7.3 years ago by ★ 1.1k • written 7.3 years ago by • 0
3
votes
2
replies
1.8k
views
Unable to connect to 'watson.nci.nih.gov' on port 80 using GEOmetadb R library
geometadb GEO R bioconductor
updated 7.3 years ago by 21k • written 7.3 years ago by ▴ 20
0
votes
0
replies
920
views
COEXNET package in bioconductor
bioconductor R coexnet
updated 7.3 years ago by 4.2k • written 7.3 years ago by • 0
0
votes
1
reply
1.2k
views
Gviz: Histograms in layers instead of stacked ANSWERED!
R Gviz gviz-package
7.3 years ago stephen.williams ▴ 10
1
vote
5
replies
1.6k
views
Differential analysis based on selection of random samples
r differential gene expression deseq2 bioconductor rnaseq
updated 7.3 years ago by 43k • written 7.3 years ago by ▴ 60
2
votes
10
replies
2.4k
views
Am I on the right tracks with a 3 factor design in Limma?
r limma design matrix biobase
updated 7.3 years ago by 53k • written 7.3 years ago by • 0
0
votes
1
reply
3.6k
views
Error : Expecting a single value: [extent=3]
bioconductor rcpp r
7.3 years ago charlesgwellem ▴ 20
2
votes
1
reply
1.1k
views
Batch Variation-MDS Plot
edger R batch effect
updated 7.3 years ago by 53k • written 7.3 years ago by • 0
0
votes
1
reply
1.4k
views
Unable to display image in browser from script
software error R ebimage
updated 7.3 years ago by ▴ 750 • written 7.3 years ago by • 0
3
votes
3
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2.0k
views
Have I used Deseq2 ,on protein array data, correctly? Or should I be using another R package
r deseq2 protein microarray
updated 7.3 years ago by 53k • written 7.3 years ago by • 0
0
votes
1
reply
1.2k
views
error with STRINGdb package to download the graph
stringdb R
7.3 years ago Salvo88 ▴ 20
1
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2
replies
1.8k
views
getLDS across both "normal" Ensembl biomart and plants.ensembl.org biomart
R biomart
updated 2.8 years ago by • 0 • written 7.3 years ago by • 0
1
vote
3
replies
5.9k
views
Load FlowCore to read .fcs files in R
flowcore flow cytometry R
7.3 years ago Bayram Sarilmaz • 0
4
votes
6
replies
5.8k
views
WARNING: remove set.seed usage in R code
R bioccheck
updated 7.3 years ago by 4.2k • written 7.3 years ago by • 0
0
votes
2
replies
1.6k
views
Error: invalid class "VRanges" object
variantannotation VRanges R Rle
updated 7.3 years ago by ★ 6.8k • written 7.3 years ago by • 0
0
votes
1
reply
2.4k
views
Get Gene IDs for a list of Gene Names in R
r bioinformatics org.Hs.eg.db genetics
updated 7.3 years ago by 25k • written 7.3 years ago by • 0
0
votes
1
reply
1.2k
views
Interactions and contrasts for DE analysis in ballgown
ballgown R RNAseq DE interactions
updated 7.3 years ago by 68k • written 7.3 years ago by • 0
3
votes
4
replies
2.7k
views
Does Fold change cutoff changes the FDR value using glmTreat function in edgeR?
edgeR r bioconductor diffferential expression fdr
updated 7.3 years ago by 68k • written 7.3 years ago by ▴ 120
4
votes
6
replies
4.5k
views
Get release date for version of DESeq2
deseq2 r
updated 7.3 years ago by 43k • written 7.3 years ago by ▴ 20
1
vote
1
reply
1.3k
views
subsets different type of data together
R multiassayexperiment rangedsummarizedexperiment summarizedexperiment
updated 7.3 years ago by ★ 1.1k • written 7.3 years ago by ▴ 160
7
votes
15
replies
7.5k
views
Differentially expressed genes selection with FC and FDR cutoff
edgeR rnaseq r bioconductor
updated 7.3 years ago by 53k • written 7.3 years ago by ▴ 60
0
votes
4
replies
2.3k
views
Merging each element of a list of Genomic range
txdb granges cds orf R
updated 7.3 years ago by 68k • written 7.3 years ago by • 0
1,163 results • Page 11 of 24
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Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by umairmugal82 • 0
When accuracy matters in academic assessment, nothing should be left to chance. [Accurate grading made simple on EasyGrader.net][1] ensures…
Comment: Help with defining groups by Phinney, Brett ▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness by massimo • 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package by ksankaran • 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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