Showing : metagenomeseq • reset
4
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6
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1.5k
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MetagenomeSeq sparsefeature question
metagenomeseq sparsefeature cumnorm
updated 8.8 years ago by 65k • written 8.8 years ago by • 0
3
votes
5
replies
2.5k
views
Interpretation for MRfulltable of fitzig in Metagenomeseq
metagenomeseq fitzig MRfulltable
updated 8.2 years ago by ▴ 280 • written 8.2 years ago by • 0
2
votes
2
replies
1.3k
views
no timeInterval output using fitTimeSeries
metagenomeSeq fitTimeSeries microbiome
9.3 years ago noelle.noyes ▴ 30
2
votes
6
replies
4.1k
views
Difference between fitFeatureModel and fitZIG in metagenomeSeq
metagenomeseq
7.1 years ago • updated 7.0 years ago sasha • 0
2
votes
4
replies
2.3k
views
normFactors when aggregating in metagenomeSeq
metagenomeSeq microbiome
updated 16 months ago by • 0 • written 9.2 years ago by ▴ 30
2
votes
1
reply
1.6k
views
Metagenome seq errors using biom (1.3) file
metagenomeseq qiime biom
updated 7.7 years ago by ▴ 280 • written 7.7 years ago by • 0
2
votes
1
reply
2.5k
views
metagenomeSeq error using cumNormStatFast
metagenomeSeq
updated 9.3 years ago by ▴ 280 • written 9.3 years ago by ▴ 30
2
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2
replies
1.5k
views
error using fitTimeSeries from metagenomeSeq
metagenomeSeq microbiome
9.3 years ago noelle.noyes ▴ 30
1
vote
1
reply
1.4k
views
Omission of final edge in correlationTest
metagenomeseq error correlationTest metagenomeseq
9.2 years ago eertel • 0
1
vote
2
replies
1.4k
views
metagenomeSeq for continuous phenotype
metagenomeseq continuous limma
7.8 years ago pjgalli2 • 0
1
vote
1
reply
1.1k
views
Metagenomeseq package; time series analysis
metagenomeseq software error
updated 9.1 years ago by ▴ 280 • written 9.1 years ago by • 0
1
vote
1
reply
1.2k
views
metagenomeSeq - normFactors
metagenomeseq
updated 8.4 years ago by ▴ 280 • written 8.4 years ago by ▴ 120
1
vote
1
reply
1.2k
views
Multiple variables in fitFeaturemodel
metagenomeseq
updated 8.1 years ago by ▴ 280 • written 8.1 years ago by • 0
1
vote
1
reply
1.6k
views
Problem reproducing metagenomeSeq tutorial example
metagenome microbiome metagenomeseq
updated 9.2 years ago by ▴ 280 • written 9.2 years ago by ▴ 30
1
vote
4
replies
1.3k
views
error using fitTimeSeries in metagenomeSeq
metagenomeseq fittimeseries
updated 7.5 years ago by ▴ 280 • written 7.5 years ago by • 0
1
vote
1
reply
3.0k
views
Low quantile estimate using CSS normalization in metagenomeSeq
metagenomeSeq microbiome
updated 9.2 years ago by ▴ 280 • written 9.2 years ago by ▴ 30
1
vote
1
reply
1.7k
views
Should I normalize communities separately with metagenomeseq?
metagenomeseq microbiome gut microbiome metagenomics shotgun metagenomics
updated 6.4 years ago by ▴ 280 • written 6.4 years ago by ▴ 10
1
vote
4
replies
1.7k
views
creating a subsetted MRexperiment based on sample name?
metagenomeseq
updated 8.7 years ago by ▴ 280 • written 8.7 years ago by • 0
1
vote
1
reply
1.1k
views
Including taxa names in heatmap in metagenomeseq
gut microbiome heatmap metagenomeseq
updated 6.2 years ago by ▴ 280 • written 6.2 years ago by • 0
0
votes
6
replies
1.8k
views
metagenomeSeq log transformation
metagenomeseq logtransformation
updated 7.2 years ago by ▴ 280 • written 7.2 years ago by • 0
0
votes
1
reply
1.1k
views
Is it possible to create a Metagenomeseq heatmap with two coloured bars on the top?
metagenomeseq heatmap
updated 7.1 years ago by 65k • written 7.1 years ago by • 0
0
votes
2
replies
1.1k
views
metagenomeSeq 1.16.0: unique features give NA's for logFC / p-val?
metagenomeseq
updated 4 months ago by • 0 • written 7.1 years ago by ▴ 10
0
votes
1
reply
1.1k
views
metagenomeSeq: role for fitLogNormal?
metagenomeseq
updated 7.1 years ago by ▴ 280 • written 7.1 years ago by ▴ 10
0
votes
2
replies
1.3k
views
How do you show/export color scale of a heatmap generated by plotMRheatmap of metagenomeSeq?
metagenomeseq plotmrheatmap color key
6.8 years ago chawonhe • 0
0
votes
1
reply
990
views
metagenomeSeq pre-analysis Data Preporation for full genome sequencing
metagenomeSeq full genome sequencing
updated 6.3 years ago by ▴ 60 • written 6.3 years ago by • 0
0
votes
2
replies
1.1k
views
Filter low counts OTUs from a MRfull table to prepare a heatmap
metagenomeseq
6.2 years ago arguello.rguez • 0
0
votes
0
replies
964
views
Paired Difference Analysis
metagenomeseq
6.2 years ago nhua • 0
0
votes
1
reply
1.4k
views
[metagenomeSeq] "Error: Warning sample with one or zero features" from cumNormStatFast
metagenomeseq cumNormStatFast features error
5.9 years ago jol.espinoz ▴ 40
0
votes
1
reply
1.1k
views
metagenomeSeq error question: error on creation of newMRexperiment
metagenomeseq error metagenomeseq microbiome
5.3 years ago slizo001 • 0
0
votes
0
replies
883
views
Including covariates with fitFeatureModel
metagenomeSeq
4.5 years ago dkorandla • 0
0
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0
replies
690
views
Fitzig function in MetagenomeSeq package
metagenomeSeq fitzig
3.3 years ago Andrew • 0
0
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0
replies
771
views
Problem with creating an MRexperiment with metagenomeseq - invalid class “MRexperiment” object: 1: feature numbers differ between assayData and featu…
MRexperiment metagenomes metagenomeSeq
3.2 years ago Laura • 0
0
votes
1
reply
804
views
Tool for metagenomic functional analysis with 4-factor study design
Metagenomics DESeq2 metagenomeSeq edgeR KEGG
updated 2.0 years ago by 41k • written 2.0 years ago by • 0
0
votes
0
replies
626
views
Using MetagenomeSeq with intercept gives high logFC
limma metagenomeSeq
2.7 years ago edissepo • 0
0
votes
0
replies
942
views
Pattern Search in MicrobiomeAnalyst
metagenomeSeq Metagenomics microbiome microbiomeExplorer
2.8 years ago GlycineMax • 0
0
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0
replies
1.4k
views
Dramatically different results from comparing multiple groups using fitZig versus fitFeatureModel
metagenomeseq
8.2 years ago craemuletz • 0
0
votes
0
replies
352
views
Try to understand better how to set out an effective sample size within the MetagenomSeq package in microbiome ?
Metagenomics metagenomeSeq microbiome phyloseq microbiomeDataSets
8 months ago Mohamed ▴ 30
0
votes
5
replies
3.5k
views
DESeq2 16s microbiome size factors
deseq2 metagenomeseq rnaseq 16s microbiome
updated 7.6 years ago by ▴ 280 • written 7.6 years ago by • 0
0
votes
10
replies
1.8k
views
Phyloseq to metagenomeSeq
limma metagenomeSeq
4.9 years ago Jitendra ▴ 10
0
votes
0
replies
1.1k
views
metagenomeSeq paper out in Nature Methods
Normalization metagenomeSeq Normalization metagenomeSeq
10.6 years ago Hector Corrada Bravo ▴ 40
0
votes
1
reply
1.4k
views
error on heatmap
PROMISE metagenomeSeq PROMISE metagenomeSeq
updated 10.1 years ago by ▴ 280 • written 10.1 years ago by ★ 13k
0
votes
1
reply
1.5k
views
mouseData in heatmap of metagenomeSeq package
Metagenomics metagenomeSeq Metagenomics metagenomeSeq
updated 10.1 years ago by ▴ 280 • written 10.1 years ago by ★ 13k
0
votes
7
replies
1.9k
views
metagenomeSeq cumNorm issue with NAs in real data
metagenomeseq
updated 9.0 years ago by ▴ 280 • written 9.0 years ago by • 0
0
votes
6
replies
3.2k
views
Alpha diversity on Rlogtransformed data
deseq2 phyloseq metagenomeseq
8.4 years ago David ▴ 860
0
votes
0
replies
977
views
Differential abundance for elevational gradient survey -- use fitTimeSeries?
metagenomeseq
8.2 years ago craemuletz • 0
0
votes
3
replies
1.6k
views
Normalisation problem in metagenomeSeq
normalization metagenomeseq
updated 8.0 years ago by ▴ 280 • written 8.0 years ago by ▴ 20
0
votes
5
replies
1.8k
views
MetagenomSeq, perform anova or kruskall wallis with three groups ?
metagenomeseq anova metagenomics
7.9 years ago David ▴ 860
0
votes
1
reply
1.0k
views
Aggregate By Taxonomy Error
metagenomeSeq
updated 7.9 years ago by ▴ 280 • written 7.9 years ago by • 0
0
votes
1
reply
1.7k
views
fitZig coefficient for interaction terms?
metagenomeseq
updated 7.9 years ago by ▴ 280 • written 7.9 years ago by • 0
0
votes
1
reply
912
views
fitTimeSeries possible error
metagenomeseq fittimeseries
updated 7.7 years ago by ▴ 280 • written 7.7 years ago by • 0
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Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
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I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
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Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
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Hi Robert, If I don't want to use all pathway in c2 gene set but only a few pathways of interested, how can I do that? So we try to get a …
Comment: How to retrieve detailed regression results from deseq2 by Weiqian ▴ 10
Hi Michael, thanks for the answer! I'll have a look : )
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