Biostar Curatedmetagenomicdata

Showing : curatedmetagenomicdata • reset

votes

replies

160

views

MicrobiomeData curatedMetagenomicData

9 weeks ago • updated 7 weeks ago Pauline ▴ 20

votes

replies

144

views

curatedMetagenomicData

updated 11 weeks ago by Lucas Schiffer ▴ 240 • written 11 weeks ago by pd378 • 0

votes

183

views

curatedMetagenomicData

updated 7 months ago by Lucas Schiffer ▴ 240 • written 7 months ago by zachary.flamholz • 0

votes

replies

375

views

curatedMetagenomicData

updated 9 months ago by Lucas Schiffer ▴ 240 • written 9 months ago by ajgasparrini • 0

votes

replies

463

views

curatedMetagenomicData TreeSummarizedExperiment

17 months ago Davide • 0

vote

replies

1.7k

views

curatedmetagenomicdata

updated 4.4 years ago by Levi Waldron 1.1k • written 4.4 years ago by grp2009 • 0

votes

replies

1.7k

views

software error curatedmetagenomicdata annotationhub experimenthub

updated 6.1 years ago by Levi Waldron 1.1k • written 6.1 years ago by morganx ▴ 10

votes

944

views

biocparallel curatedmetagenomicdata parallel dplyr

updated 6.2 years ago by Martin Morgan 25k • written 6.2 years ago by Lucas Schiffer ▴ 240

votes

replies

1.0k

views

ExperimentHub curatedMetagenomicData

updated 6.2 years ago by Lucas Schiffer ▴ 240 • written 6.3 years ago by Wolfgang Huber 13k

9 results • Page 1 of 1

Recent ...

Replies

Answer: struggling to create a heatmap by ATpoint ★ 2.1k

I am recuctant to read through that wall of code. Here is what would work. Note that prefiltering makes sense before, not after running `DE…

Answer: collapseReplicates error after tximeta by Michael Love 39k

The issue is that `collapseReplicates` just collapses `counts` and doesn't account for multiple assays which you need for e.g. Swish or oth…

Comment: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it by ATpoint ★ 2.1k

That having said, I recommend to inspect the MA-plots (`plotMA()`), at best the ones produced right from `res <- results(dds); plotMA(res)`…

Answer: Which genes are outliers in DESeq2? by ATpoint ★ 2.1k

You can take over some of the lines from `results()` to find them easily: ```r suppressPackageStartupMessages(library(DESeq2)) set.s…

Answer: Which genes are outliers in DESeq2? by Michael Love 39k

Outliers will have high maxCooks values in `mcols(dds)` -- the threshold is `qf(.99, p, n - p)` where n is sample size and p is number of c…

Votes

Significant reporter activity with mpralm function

Answer: I cannot install annotables package in Rstudio (macOS)

Answer: log2 of normalized counts for further analyzes

Answer: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it

Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it should *not* be used

Awards • All