0
votes
8
replies
3.1k
views
How to use the QUIDE-seq R/python package to remove non-genomic DNA sequences?
annotation software software error
updated 9.6 years ago by ★ 4.3k • written 9.6 years ago by ▴ 10
4
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3
replies
1.1k
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DESeq2 counts and output variables are Numbers instead of Sample Names
deseq2
9.6 years ago jshouse ▴ 10
1
vote
1
reply
998
views
VariantAnnotation quality filter
variantannotation
9.6 years ago ribioinfo ▴ 100
0
votes
9
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2.5k
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RforProteomics workflow troubleshooting
proteomics
9.6 years ago yockpingchow • 0
2
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2
replies
5.1k
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sampleNames differ between assayData and phenoData
expresionset
updated 9.6 years ago by 25k • written 9.6 years ago by ▴ 10
0
votes
1
reply
1.7k
views
problem installing biocLite, MotifDb.
motifdb bioclite
updated 9.6 years ago by 16k • written 9.6 years ago by • 0
5
votes
4
replies
4.0k
views
Map uniprot entry name to accession number
uniprot.ws
updated 4.8 years ago by 68k • written 9.6 years ago by ▴ 760
0
votes
0
replies
1.4k
views
Uploading FCS files with flow cytometry data
software error R read.fcs
9.6 years ago akisheev89 • 0
3
votes
2
replies
1.3k
views
select With Regular Expression
annotationdbi Wildcard
updated 9.6 years ago by ★ 2.1k • written 9.6 years ago by ★ 1.6k
1
vote
4
replies
2.4k
views
Effect of treatment vs control over time in RNA Seq (edgeR and limma)
edgeR limma voom RNASeq multiple time points
updated 9.6 years ago by ★ 7.9k • written 9.6 years ago by ▴ 20
1
vote
2
replies
1.4k
views
RUVSeq and Generalised Linear Mixed Model
ruvseq
updated 9.6 years ago by ▴ 980 • written 9.6 years ago by ▴ 10
1
vote
7
replies
2.6k
views
Gviz for Rnor_6
gviz
updated 9.6 years ago by 68k • written 9.6 years ago by • 0
0
votes
1
reply
1.7k
views
Survey on interactive visualization and Bioconductor
visualization epivizr
9.6 years ago Hector Corrada Bravo ▴ 60
0
votes
2
replies
2.5k
views
Generating database with non model species to be use by ReportingTools
reportingtools annotationdbi annotationhub ensembldb
updated 9.6 years ago by ★ 2.1k • written 9.6 years ago by ▴ 20
3
votes
3
replies
2.0k
views
survcomp package - censor missing
survcomp
updated 9.6 years ago by 4.2k • written 9.6 years ago by ▴ 170
1
vote
1
reply
3.3k
views
DESeq2 time series
deseq2 timecourse
updated 9.6 years ago by 43k • written 9.6 years ago by • 0
5
votes
2
replies
18k
views
Complex Heatmap - hide one legend, show 2 - out off three annotations
complexheatmap bioconductor annotation heatmap legend
9.7 years ago • updated 9.6 years ago annkatrin.goepfert ▴ 10
1
vote
3
replies
1.7k
views
Bias correction in single end experiment for DEG and DET
tximport alpine
9.6 years ago yohann.nedelec • 0
3
votes
5
replies
2.3k
views
Can featurecounts count number of mapped reads rapidly in arbitrary regions?
featurecounts rsubread
9.6 years ago Hadi Gharibi • 0
0
votes
0
replies
1.2k
views
Error with Reportingtools using ENSEMBL gene ID
reporting tools modifyDF survival
9.6 years ago cagenet34 ▴ 20
1
vote
4
replies
1.4k
views
Error when using Gviz
gviz
9.6 years ago Asma rabe ▴ 290
1
vote
0
replies
1.0k
views
the 23re and 24th segs cannot be plotted
OmicCircos
9.6 years ago magcj89 ▴ 10
2
votes
5
replies
2.0k
views
biomaRt not working?
biomart
updated 9.6 years ago by ★ 6.6k • written 9.6 years ago by ▴ 30
0
votes
1
reply
2.0k
views
SNPRelate Dendrogram Point Colors and Shapes
SNPRelate R
updated 9.6 years ago by ▴ 30 • written 9.6 years ago by • 0
0
votes
13
replies
7.4k
views
Package installation error
parathyroidse package installation dependencies
updated 9.6 years ago by 16k • written 9.6 years ago by • 0
3
votes
1
reply
3.2k
views
Gene level exploratory data analysis from tximport results
tximport edgeR DESeq2
updated 9.6 years ago by 43k • written 9.6 years ago by ★ 13k
0
votes
3
replies
1.4k
views
Normalizing RNA-Seq data without replicates.
normalization
updated 9.6 years ago by ▴ 420 • written 9.6 years ago by • 0
0
votes
1
reply
1.5k
views
maybe problem with TCGAdownload function
TCGAbiolinks
9.6 years ago hibari.kyouya • 0
1
vote
1
reply
1.9k
views
Cannot install CummeRbund on R version 3.0.2 (2013-09-25)
cummerbund
updated 9.6 years ago by 25k • written 9.6 years ago by • 0
2
votes
4
replies
2.9k
views
Problem obtaining standard error from limma
limma standard error
9.6 years ago José Luis Lavín ▴ 10
6
votes
9
replies
2.3k
views
Interpretation of DE analysis results of an Illumina microarray dataset, and possible batch effect size problem
limma illumina microarray multifactorial design batch effect
updated 9.6 years ago by 53k • written 9.6 years ago by ▴ 90
1
vote
6
replies
2.3k
views
extracting cpm expression from limma fit
limma cpm
updated 9.6 years ago by ▴ 10 • written 9.8 years ago by ▴ 40
0
votes
1
reply
1.1k
views
problems on the CNV detection by cn.mops using multiply WGS data
cn.mops
updated 9.6 years ago by ▴ 540 • written 9.6 years ago by • 0
2
votes
3
replies
1.5k
views
error using the TTP package
TPP
updated 9.6 years ago by 25k • written 9.6 years ago by ▴ 30
2
votes
0
replies
1.8k
views
Job: Two year postdoc position at Trento, Laboratory of Neurogenomic Biomarkers, Italy
job GWAS genetics genomics neuro Job
9.6 years ago enridomenici ▴ 10
1
vote
1
reply
1.6k
views
How does limma calculate log-ratio of fold change?
limma logfoldchange
updated 9.6 years ago by 53k • written 9.6 years ago by • 0
0
votes
4
replies
1.1k
views
Asking for dataset Chronic Lymphocytic Leukemia
cancer
9.6 years ago msh609361 • 0
0
votes
1
reply
1.8k
views
msa memory limitation
msa
updated 9.6 years ago by ▴ 300 • written 9.6 years ago by ▴ 40
0
votes
0
replies
1.1k
views
GOTHiC odd output
gothic
9.6 years ago manduchi ▴ 10
0
votes
1
reply
1.9k
views
Problem with retrieving information from results function of DESeq2 v.1.10.1
deseq2
updated 9.6 years ago by 43k • written 9.6 years ago by ▴ 20
0
votes
1
reply
2.1k
views
can't install workflow "rnaseqGene" with Bioconductor version3.3
bioconductor workflowinstall error rnaseqgene
updated 9.6 years ago by ★ 6.8k • written 9.6 years ago by ▴ 20
2
votes
4
replies
2.0k
views
Uderstanding write.fit output without ID_REF
limma
9.6 years ago moradzadeh_k921 • 0
0
votes
3
replies
3.2k
views
Wald vs LRT: different number of significant genes when testing the same coefficient
deseq2 wald lrt genes significance
updated 9.6 years ago by 43k • written 9.6 years ago by ▴ 20
0
votes
4
replies
6.4k
views
Please help me with the error of " installation of package had non-zero exit status"
bioconductor r packages installation
updated 9.6 years ago by 25k • written 9.6 years ago by ▴ 20
1
vote
1
reply
2.0k
views
Custom scoring for subnetworks in BioNet
bionet network
updated 9.6 years ago by ▴ 120 • written 9.6 years ago by ▴ 680
1
vote
2
replies
1.8k
views
Additional high-scoring subnetworks in BioNet
bionet network
updated 9.6 years ago by ▴ 120 • written 9.6 years ago by ▴ 680
1
vote
2
replies
1.8k
views
Common dispersion from estimateGLMRobustDisp()
edgeR dispersion
updated 9.6 years ago by ★ 29k • written 9.6 years ago by ▴ 90
1
vote
1
reply
2.1k
views
Behaviour of within in findOverlaps function in connection with maxgap parameter
IRanges genomicranges
updated 9.6 years ago by 16k • written 9.6 years ago by ▴ 10
0
votes
2
replies
1.6k
views
error using EPIC early access version arrays with minfi
epic minfi read.metharray software error
9.6 years ago mcastrod • 0
0
votes
0
replies
1.4k
views
CRLMM: missing mitochondrial SNPs
crlmm genotype mitochondria
9.6 years ago nadne ▴ 10
46,711 results • Page 389 of 935
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Comment: Ensembl plants at annotationHub? by jwp48 • 0
Nope I don't mind haha! Anyway thanks so much! Thats super kind of you!
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Hi Andrew, We don't have that much experience combining different datasets with limpa yet, but my feeling is that the same DPC should be u…
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Thank you @seandavi for your feedback. I followed your recommendations and generated a [pull request][1] including the fix for this issue…
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Hope you don't mind I am not Johannes... ;-) Note that you nowadays can generate these yourselves using the `docker` image Johannes made av…
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Thanks for the reminder about DiffVar (for that project I ended up using GAMLSS in the end and haven't touched DiffVar since) and the alter…
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