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Problem with AnnotationHub after crash during first download of metadata
annotationhub written 1 hour ago by konstantinos.bogias • 0
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How can I remove the row and column labels/names in the plot() or dba.plotHeatmap() while plotting correlation matrix using diffbind?
diffbind plot heatmap.3 written 8 hours ago by researcher • 0
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package DESeqDataSet is not available for R version 3.6.1
deseq2 written 9 hours ago by HAILYTR • 0 • updated 7 hours ago by Martin Morgan ♦♦ 23k
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filter based on variant annotation
variant annotation topmedpipeline assoctestaggregate written 9 hours ago by winstondunnmd • 0 • updated 9 hours ago by Martin Morgan ♦♦ 23k
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9
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MBDseq analysis using qsea package
qsea mbdseq written 11 hours ago by LNathanson • 0
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13
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Data input for aracne2regulon function in viper package
viper written 13 hours ago by maya.kappil • 10
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1
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21
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DESeq2: Paired multifactor test with batch effect - one or more variables in design formula are linear combinations of others
deseq2 written 13 hours ago by erin.gill81 • 40 • updated 13 hours ago by Michael Love ♦ 24k
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17
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GVIZ stacking error
gviz written 14 hours ago by d.depledge • 0
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27
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DESeq2 rlog as the input for ARACNE
deseq2 written 18 hours ago by Tom • 10 • updated 18 hours ago by Michael Love ♦ 24k
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1
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53
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DESeq2 one group vs multiple groups comparison in presence of batch effect
deseq2 batch comparison written 21 hours ago by amin.ghareyazi • 0 • updated 19 hours ago by Michael Love ♦ 24k
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62
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DESeq2 normalization vs VST vs rlog
deseq2 written 22 hours ago by Jonas B. • 0 • updated 20 hours ago by Michael Love ♦ 24k
2
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1
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41
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1
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Are there any functions to subtract all features(rows) to a particular value(row) in the same data file?
normalization R python matrix written 1 day ago by mohammedtoufiq91 • 0 • updated 22 hours ago by shahryary • 20
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1.2k
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Rhtslib - install error
error installation rhtslib zlib written 10 months ago by boboshaq • 0 • updated 1 day ago by jiaobingke • 0
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Job: Bioinformatics Analyst II, Genomics Shared Resource (Seattle, WA)
job R bioinformatics genomics seattle python written 1 day ago by Fred Hutch (Recruiting) • 10
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3
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598
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Getting data into (and out of) the MSnSet object
proteomics msnbase msnset readmsnset msmstests written 19 months ago by moldach • 10 • updated 1 day ago by sutturka • 0
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1
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33
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Using VST normalized values for "external" single gene analysis
normalization deseq2 vst written 1 day ago by filippo.martignano • 0 • updated 1 day ago by Michael Love ♦ 24k
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53
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Design matrix for cohort with samples outside "block"
limma sva voom written 2 days ago by kentfung • 0
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42
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Question about design formulas in DESeq2 (4 genotypes, 2 batches, 2 cell states)
deseq2 written 2 days ago by rachellcosby • 0 • updated 1 day ago by Michael Love ♦ 24k
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1
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1
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BiocCheck gives 'Error in readLines(file, skipNul = TRUE) : cannot open the connection'
bioccheck written 2 days ago by zhezhenwang • 0 • updated 1 day ago by James W. MacDonald ♦ 50k
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Is mm10.p6 available as BSgenome?
bsgenome.mmusculus.ucsc.mm10 written 2 days ago by Aditya • 70 • updated 1 day ago by James W. MacDonald ♦ 50k
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1
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71
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tx2gene for xenopus LAEVIS
deseq2 written 2 days ago by Daria • 0 • updated 1 day ago by James W. MacDonald ♦ 50k
5
votes
1
answer
100
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1
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DESeq2 multiple group comparison (ANOVA) with batch effect
deseq2 anova batch effect deg comparison written 1 day ago by amin.ghareyazi • 0 • updated 1 day ago by Michael Love ♦ 24k
1
vote
1
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27
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1
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Support for import of custom matrix data in the ddCt R package
ddct R analysis import qrtpcr written 1 day ago by mohammedtoufiq91 • 0 • updated 1 day ago by Zhang, Jitao David • 110
2
votes
1
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40
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1
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Accounting for Gene Set Overlaps in Goana and Kegga Results
limma pathway written 1 day ago by Dario Strbenac • 1.5k • updated 1 day ago by mikhael.manurung • 160
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A question about DEXSeq of estimateDispersions
dexseq written 2 days ago by liushang • 0
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