Showing : R • reset
0
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0
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1.7k
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brnn package (Bayesian regularization for feed-forward neural networks)
R machine learning brnn caret
7.3 years ago elisa.micarelli ▴ 10
6
votes
7
replies
3.5k
views
Differences between RTCGA and TCGAbiolinks data
r survival analysis rtcga tcgabiolinks mirna-seq
7.3 years ago atakanekiz ▴ 30
0
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0
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1.2k
views
Error while extracting pseudo amino acid composition using protr
r source code error
7.3 years ago shreyasarkar0 • 0
4
votes
5
replies
7.1k
views
Up/Down Regulated GeneList from edgeR and R
edger R Up reg genelist
updated 7.4 years ago by 53k • written 7.4 years ago by • 0
0
votes
0
replies
1.1k
views
Inter-run calibration in HTqPCR R package
htqpcr R
7.4 years ago dbarscortina • 0
2
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1
reply
2.6k
views
Error in TCGAquery of TCGAbiolinks Package
software error bioconductor tcgabiolinks tcga r
updated 7.4 years ago by ▴ 90 • written 7.4 years ago by ▴ 60
2
votes
3
replies
1.1k
views
How can I check the quality of code I have written? How to QC?
R limma bioconductor
updated 7.4 years ago by 25k • written 7.4 years ago by ▴ 10
0
votes
5
replies
1.9k
views
CSAW Spike In Normalization: Error in .local(object, ...) : library sizes of 'se.out' and 'object' are not identical
csaw software error R chip-seq bioconductor
updated 7.4 years ago by ★ 29k • written 7.4 years ago by • 0
3
votes
6
replies
1.5k
views
help DESeq2 model design
deseq2 R
updated 7.4 years ago by 43k • written 7.4 years ago by ▴ 20
2
votes
3
replies
3.4k
views
Bioconductor local installation, R versions
R bioconductor local local installation centos7
updated 7.4 years ago by 68k • written 7.4 years ago by ▴ 10
1
vote
7
replies
1.6k
views
Unable to move temporary installation R issue
software error R
updated 7.4 years ago by 25k • written 7.4 years ago by • 0
1
vote
2
replies
1.4k
views
Request to remove requirement for gr to have widths 1 in BSseq constructor
bsseq r package
updated 7.4 years ago by • 0 • written 7.4 years ago by ▴ 140
0
votes
5
replies
1.7k
views
How to simulate time course RNA seq data using DESeq?
deseq2 R makeexampledeseqdataset deseq
updated 7.4 years ago by 43k • written 7.4 years ago by • 0
0
votes
4
replies
2.0k
views
HOW to define the "parLabVc" indices in ropls package.
R ropls
updated 7.4 years ago by ▴ 40 • written 7.4 years ago by • 0
1
vote
19
replies
30k
views
Import bamfiles for RNAsequencing analysis
R rnaseq bam file
updated 7.4 years ago by 53k • written 7.5 years ago by ▴ 10
5
votes
12
replies
9.4k
views
Filtering step for differential analysis in edgeR
r edger differential gene expression filtering bioconductor
updated 7.4 years ago by 53k • written 7.4 years ago by ▴ 120
3
votes
6
replies
5.8k
views
Principle component analysis plot with gene expression data
r pca rnaseq edger ggbiplot
updated 7.4 years ago by 68k • written 7.4 years ago by ▴ 120
0
votes
5
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1.6k
views
DEseq2 differentially expressed genes have lower expression values than non-differentially expressed genes
deseq2 R
7.5 years ago lychen83 • 0
2
votes
2
replies
1.6k
views
Queries around makeOrgPackageFromNCBI
R software error annotationforge
updated 7.5 years ago by ★ 4.1k • written 7.5 years ago by • 0
2
votes
4
replies
2.5k
views
How to get sequence homology percent from a multiple sequence alignment in DECIPHER?
decipher r protein alignment
7.5 years ago reubenmcgregor88 • 0
1
vote
1
reply
4.2k
views
Rsamtools : separating mapped and unmapped reads from BAM or SAM files (for a newbie)
R sequencing alignment rsamtools mapping
updated 7.5 years ago by 68k • written 7.5 years ago by ▴ 10
0
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0
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1.1k
views
msa output formats for use down stream to create phylogenetic trees
R bioconductor phylogenetic
7.5 years ago cav3gh • 0
0
votes
0
replies
1.4k
views
R function to deconvolve ESI MS spectra of multiple charge large biopolymers
mass spectrometry R mzR
7.5 years ago andreas.breidbach • 0
3
votes
5
replies
2.2k
views
EdgeR: Prior degrees of freedom effect on tag wise dispersion
R edgeR rnaseq rna-seq
updated 7.5 years ago by ★ 29k • written 7.5 years ago by ▴ 20
0
votes
1
reply
1.0k
views
Setting up PLAYRDesign gives error on makeTxDbFromUCSC, error in tableNames
genomicfeatures R
7.5 years ago songshan.guo • 0
4
votes
8
replies
2.1k
views
edgeR error when trying to filter peaks with low read counts
edger R filtering
7.5 years ago camerond • 0
0
votes
1
reply
805
views
Please help to address the BiocCheck NOTEs
R
updated 7.5 years ago by 25k • written 7.5 years ago by ▴ 10
0
votes
4
replies
4.4k
views
featureCounts taking 4-10 hours per BAM file?
featurecounts r rnaseq
7.5 years ago octopuslegs11 • 0
0
votes
1
reply
1.4k
views
counting reads with muliple hits with SummarizeOverlaps
R seq ngs summarizeoverlaps
updated 7.5 years ago by ★ 6.8k • written 7.5 years ago by • 0
1
vote
3
replies
1.9k
views
Error biocLite() newest version of ChAMP
R bioclite champ
7.5 years ago rosa_hegi ▴ 10
0
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1
reply
1.2k
views
Detect Sites with Minimum Gap in GRanges Object
R genomicranges granges grange
7.5 years ago g.k • 0
0
votes
1
reply
1.2k
views
Update package permission Everytime
software error R bioconductor rmysql
7.5 years ago vivekr • 0
3
votes
2
replies
2.4k
views
Error while getFirehoseData of RTCGAToolbox package
firehose R RTCGAToolbox getFirehoseData
updated 7.5 years ago by 700 • written 7.5 years ago by ▴ 30
0
votes
1
reply
2.0k
views
Error while Installing DESeq2
software error R deseq2 rnaseq
updated 7.5 years ago by 43k • written 7.5 years ago by • 0
0
votes
1
reply
583
views
Mapping genomic coordinates to protein-relative coordinates
R bioconductor
updated 7.5 years ago by 68k • written 7.5 years ago by • 0
0
votes
0
replies
1.3k
views
SPIA function error in ToPASeq
ToPASeq SPIA pathway analysis R
7.5 years ago fawazfebin ▴ 60
2
votes
18
replies
4.2k
views
Using tximport on rsem files produces error while trying to read in files
R tximport rnaseq tpm rsem
7.5 years ago stephan.emmrich ▴ 10
0
votes
2
replies
3.8k
views
Can't Use "getGEO" Command Function in R Program
microarray software error bioconductor affy R
updated 7.5 years ago by 68k • written 7.5 years ago by • 0
1
vote
2
replies
2.3k
views
Detecting Overlaps within Grange Object
r grange granges iranges
updated 7.6 years ago by ★ 11k • written 7.6 years ago by • 0
0
votes
3
replies
4.6k
views
Error when constructing DESeqDataSetFromMatrix (Error in round(assay(se)): non-numeric argument to mathematical function)
deseq2 R error
updated 7.6 years ago by 43k • written 7.6 years ago by • 0
0
votes
5
replies
27k
views
package DESeq2 installation with R.
deseq2 R package installation
updated 4.4 years ago by 43k • written 7.6 years ago by • 0
0
votes
0
replies
1.3k
views
Error in building expression set for ArrayExpress
microarray expressionset arrayexpress bioconductor r
7.6 years ago rf • 0
0
votes
2
replies
1.9k
views
unable to install "variant"
R libxml2
updated 7.6 years ago by ▴ 160 • written 7.6 years ago by • 0
2
votes
2
replies
1.7k
views
Get canonical exon locations for gene
genomicfeatures r bioconductor
updated 7.6 years ago by 68k • written 7.6 years ago by • 0
1
vote
2
replies
1.3k
views
Inserting "Biotype" into scater SCE objects
scater sce biotype R
updated 7.6 years ago by ★ 29k • written 7.6 years ago by • 0
0
votes
3
replies
2.3k
views
choose between normalization techniques for OTU counts
deseq2 normalization R edger
7.6 years ago apfelbapfel ▴ 30
0
votes
6
replies
2.2k
views
DESeq2 It is correct to use interaction term for patient variability?
deseq2 design interaction term R
written 7.6 years ago by • 0
3
votes
1
reply
806
views
Gene expression analysis
cancer R
updated 7.6 years ago by 68k • written 7.6 years ago by • 0
4
votes
0
replies
1.3k
views
News: Bioconductor at useR! 2018
conference r bioconductor News
7.6 years ago Matthew Ritchie ▴ 1000
0
votes
1
reply
1.7k
views
topGO error : could not find function "annotationFun"
topGO R
7.6 years ago User • 0
1,163 results • Page 12 of 24
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Comment: DESeq2 design for haplotype MPRA by Rita • 0
Thank you very much, I appreciate it!
Answer: DESeq2 design for haplotype MPRA by Michael Love 43k
> My goal is to identify which non-reference haplotypes are differentially active compared to the corresponding ref/ref haplotype within ea…
Answer: "organism" missing in BSgenome.Hsapiens.UCSC.hg38 slotNames by James W. MacDonald 68k
It seems fine on devel as well. ``` > BSgenome.Hsapiens.UCSC.hg38 | BSgenome object for Human | - organism: Homo sapiens | - provide…
Comment: "organism" missing in BSgenome.Hsapiens.UCSC.hg38 slotNames by James W. MacDonald 68k
R-4.5.1 is compatible with both release and devel versions of Bioconductor. Which one are you using? I am still on release, and it's fine: …
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…
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Answer: DESeq2 design for haplotype MPRA
A: Different logFC (log2foldchange) values for genes from limma-voom and other too
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
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