0
votes
1
reply
597
views
Unable to subseq the quality on fastq
biostrings shortread
updated 5.9 years ago by 68k • written 5.9 years ago by ▴ 30
0
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3
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2.2k
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DESeq2 - cannot find function?
deseq2 r software error
updated 5.9 years ago by 43k • written 5.9 years ago by • 0
4
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3
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RNA-Seq analysis with DESeq2: showing two conditions do *not* significantly differ
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updated 5.9 years ago by ★ 13k • written 5.9 years ago by ▴ 20
0
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1
reply
366
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DESeq2 : Model clarification
deseq2
updated 5.9 years ago by 43k • written 5.9 years ago by ▴ 20
0
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8
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3.5k
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updated 5.9 years ago by 43k • written 5.9 years ago by • 0
0
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5
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updated 5.9 years ago by 43k • written 5.9 years ago by • 0
1
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1
reply
7.2k
views
How to import featureCounts data into DESeq2
DESEq2
updated 5.9 years ago by 43k • written 5.9 years ago by • 0
0
votes
1
reply
1.6k
views
mzR has been built against a different Rcpp version (1.0.2) than is installed on your system (1.0.3)
mzr
updated 5.9 years ago by 1.6k • written 5.9 years ago by • 0
0
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2
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1.3k
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plotMD invert colors
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updated 5.9 years ago by 53k • written 5.9 years ago by • 0
0
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4
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1.4k
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Number of interaction terms in linear regression model
limma linear regression model interaction terms
updated 5.9 years ago by 53k • written 5.9 years ago by • 0
1
vote
2
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1.0k
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adding gene names with biomaRt hgnc_symbol column <logical> with NA
biomaRt gene annotation
updated 5.9 years ago by 68k • written 5.9 years ago by ▴ 10
0
votes
1
reply
1.4k
views
Adjusting for unwanted variation in DESeq2
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updated 5.9 years ago by 68k • written 5.9 years ago by • 0
0
votes
1
reply
484
views
affyQCreport ISSUE OF VECTOR ALLOCATION ERROR..
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updated 5.9 years ago by 68k • written 5.9 years ago by • 0
2
votes
4
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1.6k
views
DEsingle differential-expression analysis
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updated 5.9 years ago by ▴ 10 • written 6.2 years ago by ▴ 60
4
votes
2
replies
1.0k
views
Multiple testing across both contrasts and genes using the "nestedF" method
limma rnaseq
5.9 years ago fl ▴ 20
3
votes
3
replies
1.3k
views
How are the P and adjusted P values calculated in de_analysis() from Lipidr?
lipidr
updated 5.9 years ago by ▴ 10 • written 5.9 years ago by • 0
0
votes
1
reply
771
views
TPP- data input
TPP
updated 5.9 years ago by 53k • written 5.9 years ago by • 0
1
vote
1
reply
1.2k
views
multifactor desing with interaction LRT or Wald test?
deseq2 LRT wald
updated 5.9 years ago by ★ 4.0k • written 5.9 years ago by ▴ 10
5
votes
7
replies
3.0k
views
Problem with installing packages made by makeOrgPackageFromNCBI
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updated 2.8 years ago by ▴ 50 • written 5.9 years ago by ▴ 20
1
vote
3
replies
1.3k
views
Extract the relevant information of the genes sets from the Bioconductor annotation package
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updated 5.9 years ago by 68k • written 5.9 years ago by • 0
0
votes
0
replies
1.3k
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Job: Bioinformatics Analyst/Bioinformatics Research Scientist (Van Andel Institute)
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5.9 years ago deanpett ▴ 30
1
vote
0
replies
1.2k
views
News: Bioconductor Release 3.11 Schedule Posted
release deadlines builds packages News
5.9 years ago shepherl 4.3k
0
votes
7
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2.7k
views
DropletUtils::swappedDrops more cells than using Read10x with filtered_feature_bc_matrix files
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updated 5.9 years ago by ★ 29k • written 5.9 years ago by • 0
3
votes
0
replies
741
views
News: BioC2019 Code of Conduct violation response
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updated 5.9 years ago by 25k • written 5.9 years ago by ★ 1.1k
0
votes
1
reply
858
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R studio abort using rgraphviz when using node labels
rgraphviz
updated 5.9 years ago by 68k • written 5.9 years ago by • 0
0
votes
0
replies
872
views
TMixClust - what type of input data / how to import from DESeq2?
TMixClust time series expression analysis
updated 5.9 years ago by 43k • written 5.9 years ago by • 0
0
votes
2
replies
990
views
Use ddCT with gene specific efficiencies?
ddCt efficiency gene specific efficiencies
updated 5.9 years ago by ▴ 120 • written 5.9 years ago by • 0
0
votes
1
reply
1.1k
views
How to use panelcn.mops to detect CNVs from whole genome data by getting count windows from BED file?
cn.mops panelcn.mops CNV detection CNV
5.9 years ago metzgerlukas • 0
0
votes
1
reply
816
views
Meaning of log2 fold change in 2 x 4 interaction
deseq2
updated 5.9 years ago by 43k • written 5.9 years ago by ▴ 10
1
vote
4
replies
1.7k
views
package to analyze generic protein microarray data
microarray protein analysis ProteomeProfiler
updated 5.9 years ago by 53k • written 5.9 years ago by • 0
1
vote
3
replies
2.3k
views
In DESeq2, how do you interpret results based on the order of variables in the "contrast" argument?
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updated 5.9 years ago by ★ 4.0k • written 5.9 years ago by • 0
7
votes
6
replies
31k
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Conversion of LogFC to FC
limma logfc fc
updated 5.9 years ago by 53k • written 5.9 years ago by ▴ 20
2
votes
3
replies
1.8k
views
Absence of significant gene in DEG list
limma microarray
7.8 years ago • updated 5.9 years ago nia ▴ 20
0
votes
0
replies
829
views
cn.mops : undef chromsome using data matrix as input
CNV cn.mops undef
5.9 years ago ankita.narang86 • 0
0
votes
0
replies
500
views
Error in (function (classes, fdef, mtable) in SCnorm
software error
5.9 years ago yueli7 ▴ 20
1
vote
1
reply
586
views
mate pairs read counts as input for DESeq2
deseq2
updated 5.9 years ago by 68k • written 5.9 years ago by ▴ 10
1
vote
4
replies
3.4k
views
Problem installing annotation packages AnnotationDbi & BiocFileCache
software error annotation
written 5.9 years ago by • 0
1
vote
2
replies
1.1k
views
Data not getting normalised after DESeq2
deseq2 normalization
updated 5.9 years ago by 43k • written 5.9 years ago by ▴ 40
1
vote
0
replies
976
views
News: [rOpenSci] Community Call: Maintaining an R Package
ropensci webinar News
5.9 years ago Leonardo Collado Torres ★ 1.1k
2
votes
0
replies
1.3k
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News: [CDSB] Workshop 2020: Building workflows with RStudio and Bioconductor for single cell RNA-seq analysis
CDSB Mexico Workshop News
5.9 years ago Leonardo Collado Torres ★ 1.1k
1
vote
5
replies
2.7k
views
Is there a way to use cytofkit on R version 3.6.3?
cytofkit
updated 5.9 years ago by 25k • written 5.9 years ago by ▴ 10
0
votes
4
replies
1.7k
views
Why is PureCN LOH file missing some segments
purecn loh
5.9 years ago twtoal ▴ 10
0
votes
3
replies
1.2k
views
How to keep remote file name by bfcadd in BiocFileCache?
BiocFileCache
updated 5.9 years ago by 4.3k • written 5.9 years ago by ▴ 80
3
votes
6
replies
1.0k
views
MA plot shows inflation of downregulated genes.
deseq2
updated 5.9 years ago by 43k • written 5.9 years ago by ▴ 10
0
votes
3
replies
1.1k
views
Installation problems -Installation path not writeable
installation problems MSGFplus and MSGFgui
updated 5.9 years ago by 68k • written 5.9 years ago by • 0
0
votes
1
reply
3.4k
views
Where in the procedure do I remove low-expressed genes?
deseq2 edger
updated 5.9 years ago by 43k • written 5.9 years ago by • 0
2
votes
1
reply
2.3k
views
Level 3 TCGA tumor samples
TGCA
updated 5.9 years ago by ★ 4.0k • written 5.9 years ago by ▴ 50
2
votes
1
reply
2.3k
views
Multiple protein ids issue- which protein IDs should be selected for downstream analysis?
Proteomics enrichment Perseus
5.9 years ago harelarik ▴ 60
0
votes
2
replies
1.7k
views
Study Modules significance (or Modules Preservation) in ONE network
modulePreservation WGCNA modules significance permutation
7.8 years ago • updated 5.9 years ago harelarik ▴ 60
1
vote
1
reply
954
views
a package with randomization/permutation tests for genomic analyses
normalization
5.9 years ago Bogdan ▴ 670
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This rotation style program sounds like a great way to explore different fields before committing to one. Similarly, apkgamex lets users ex…
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The design matrix that I described above is completely general. I imagine that it would be possible to use the same approach to generate fu…
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