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updated 4.5 years ago by • 0 • written 10.7 years ago by ▴ 50
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updated 10.7 years ago by ★ 8.2k • written 10.7 years ago by ▴ 10
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10.7 years ago Merienne Nicolas ▴ 120
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ArrayExpress (finding differential expression using bioconductor+C)
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10.7 years ago SSK ▴ 10
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updated 10.7 years ago by ★ 5.2k • written 10.7 years ago by • 0
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updated 10.7 years ago by 68k • written 10.7 years ago by ▴ 10
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Producing alternate protein sequences from VCF
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10.7 years ago dan.gatti • 0
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DESeq2 with 2 factors: problem to fit the negative binomial and weird p-value distributions
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updated 10.7 years ago by 43k • written 10.7 years ago by ▴ 50
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DEXSeq output "Gene Model"
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10.8 years ago • updated 10.7 years ago atisou • 0
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Call differential peaks directly from Bed file
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10.7 years ago yijing.su • 0
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Reporting Tools error
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fourCseq - zscore distribution - trans interractions
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updated 10.7 years ago by 25k • written 11.2 years ago by ▴ 140
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How to export a STRINGDB network to XML
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updated 10.7 years ago by ▴ 10 • written 10.7 years ago by ▴ 160
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GOterm semantic similarity with non-reference organism
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10.7 years ago cpcantalapiedra • 0
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How to get feature ID's from the raw codelink data.
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10.7 years ago Agaz Hussain Wani ▴ 260
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updated 10.7 years ago by ▴ 760 • written 10.7 years ago by ▴ 260
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10.7 years ago svlachavas ▴ 840
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virtualArray package not Available in Rv3.1.1
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updated 10.7 years ago by • 0 • written 11.2 years ago by • 0
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10.7 years ago Aditya ▴ 160
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GOSEQ: could not find any categories for many genes
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10.7 years ago Vivek.b ▴ 100
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Gene set analysis with CAMERA
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updated 10.7 years ago by 53k • written 11.3 years ago by • 0
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CAMERA limma package. Gene set analysis.
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updated 10.7 years ago by 53k • written 10.7 years ago by • 0
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Machine learning methods for feature selection and possible correlation with clinical data
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10.7 years ago svlachavas ▴ 840
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updated 10.7 years ago by 21k • written 10.7 years ago by • 0
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Gene set enrichment analysis with gage package returning NaN p-values
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updated 10.7 years ago by ★ 1.6k • written 10.7 years ago by • 0
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hwriter or reportingtools: open link in new tab?
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10.7 years ago Wade Davis ▴ 60
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Job: Postdoctoral Research Associate Position- Harvard Medical School (Probabilistic Algorithms and Software for Biomedical Big Data)
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10.7 years ago Doe, Aimee ▴ 40
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10.7 years ago Doe, Aimee ▴ 40
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10.7 years ago Doe, Aimee ▴ 40
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updated 10.7 years ago by 68k • written 10.7 years ago by • 0
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10.7 years ago Valerie Obenchain ★ 6.8k
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updated 10.7 years ago by ▴ 70 • written 10.7 years ago by ★ 2.1k
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10.7 years ago m016648 • 0
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10.7 years ago Hermann Norpois ▴ 170
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updated 10.7 years ago by ★ 3.4k • written 11.1 years ago by ▴ 760
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retrieving phastConsScores via 'scores' from 'VariantFiltering' shows inconsistency
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updated 10.7 years ago by ★ 3.4k • written 10.7 years ago by ▴ 40
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Plots and Heat Maps not displaying in RGui Window
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10.7 years ago greg.mulhearn • 0
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Possible ways of performing non-specific intensity filtering on Perfect-match only affymetrix array
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10.7 years ago svlachavas ▴ 840
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Possible implementation of two class paired Rank Products in r with package RankProd
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10.7 years ago svlachavas ▴ 840
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10.7 years ago cporter • 0
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updated 10.7 years ago by ★ 13k • written 10.7 years ago by • 0
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10.7 years ago stark • 0
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DESeq2: how to construct the design matrix?
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updated 10.7 years ago by 43k • written 10.7 years ago by • 0
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Unable to set colors in plotrt function in xcms package
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10.7 years ago Johannes Rainer ★ 2.1k
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ClusterProfiler: enrichGO / compareCluster and Pvalue threeshold
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updated 10.7 years ago by ★ 1.2k • written 10.7 years ago by ▴ 140
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updated 10.7 years ago by ▴ 60 • written 11.0 years ago by • 0
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updated 10.7 years ago by ▴ 800 • written 10.7 years ago by • 0
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10.7 years ago greg.mulhearn • 0
46,717 results • Page 460 of 935
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Comment: Joining different datasets and analyzing using the group-specific condition effe by James W. MacDonald 68k
There is an example of how you can do this in the [DESeq vignette][1]. An alternative would be to fit a linear mixed model using the `vari…
Comment: Joining different datasets and analyzing using the group-specific condition effe by jason.chai • 0
@mikelove Could I please ask if a similar method would work my set of samples? I have 255 samples which have been generated from 76 subject…
Comment: Clarification on counting in Rsubread (featureCounts) by Luca • 0
Thanks to both of you for your helpful suggestions. The counting was already strand-specific at both the exon and gene levels. I resolved …
Comment: Clarification on counting in Rsubread (featureCounts) by Gordon Smyth 53k
Have you told featureCounts to do strand-specific counting? As pointed out by Frances Turner, you can lose reads if they overlap the gene …
Answer: Clarification on counting in Rsubread (featureCounts) by Frances Turner ▴ 20
You should look at the summary files produced by feature counts. This gives a breakdown of what happened to reads that were not assigned. Y…
Votes
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
Answer: Clarification on counting in Rsubread (featureCounts)
Comment: Clarification on counting in Rsubread (featureCounts)
C: ControlGenes/ housekeeping genes Deseq2
Answer: Clarification on counting in Rsubread (featureCounts)
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