Bioconductor BiocVersion

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BiocVersion

updated 4 months ago by ATpoint ★ 4.0k • written 4 months ago by paul.lempka02 • 0

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BiocVersion phangorn ShinyApps

updated 5 months ago by James W. MacDonald 65k • written 5 months ago by susan • 0

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BioCor bioc BiocVersion

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BiocVersion OrgDb clusterProfiler

17 months ago MK • 0

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BiocVersion

updated 2.7 years ago by shepherl 3.8k • written 2.7 years ago by J • 0

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destiny BiocVersion

updated 2.8 years ago by shepherl 3.8k • written 2.8 years ago by Yiming ▴ 10

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DESeq2 BiocVersion

updated 2.8 years ago by glennmaxwell229 • 0 • written 2.8 years ago by Daisy • 0

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bioconductoroversight news community BiocVersion

3.0 years ago Matthew Ritchie ▴ 1000

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versions BiocVersion dependencies

updated 3.1 years ago by shepherl 3.8k • written 3.1 years ago by sohitmiglani • 0

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bioconductoroversight community BiocVersion news

updated 3.1 years ago by aedin • 0 • written 3.2 years ago by Matthew Ritchie ▴ 1000

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massgeek Reactome Proteomics STRINGdb

3.4 years ago paula • 0

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docker BiocManager BiocVersion

updated 5.0 years ago by Martin Morgan 25k • written 5.0 years ago by Michael Steinbaugh ▴ 90

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Comment: Differential peaks that were not identified in diffbind were identified in diseq by ATpoint ★ 4.0k

Make an MAplot. There is almost certainly an issue with normalization here given the very biased distribution of logFCs as in this Volcano.

Comment: significant difference of p-values with dream() after updating VariancePartition by gabriel.hoffman ▴ 100

See variancePartition updates for [v1.33.11](https://diseaseneurogenomics.github.io/variancePartition/news/index.html#variancepartition-133…

Comment: A ComBat-seq issue: the covariates are confounded by W. Evan Johnson ▴ 850

This is only partially confounded because there is overlap between the batches -- they both have GFP controls that can be used to remove ba…

Answer: Different number of exons in reference genome affects DEXSeq analysis by Alejandro Reyes ★ 1.9k

Likely the new annotation that you are using has more annotated isoforms, and thus the exons are splitted into more disjoint exonic bins. I…

Answer: Adding columns to DEXSeqResults object by Alejandro Reyes ★ 1.9k

I'd have a look into the match function, that could give you a mapping between the ids in the dxr1 object and your data frame of gene symbo…

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Comment: DEXSeq DEXSeqDataSet count matrix duplication

Comment: Error in champ.load(): The following specified files do not exist

Answer: Error in read.metharray(basenames = files, extended = extended, verbose = verbos

Using GRanges and IRanges to simply get all chromosome data

A: Using GRanges and IRanges to simply get all chromosome data

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