Showing : metagenomics • reset
0
votes
2
replies
770
views
Query regarding phyloseq object construct with QIIME output
phyloseq microbiome Metagenomics
updated 14 days ago by • 0 • written 12 months ago by • 0
0
votes
2
replies
580
views
Job: Postdoc and Bioinformatician position in metagenomic data analysis available
Metagenomics curatedMetagenomicData bugsigdbr
written 5 months ago by ★ 1.1k
0
votes
0
replies
393
views
Try to understand better how to set out an effective sample size within the MetagenomSeq package in microbiome ?
Metagenomics metagenomeSeq microbiome phyloseq microbiomeDataSets
9 months ago Mohamed ▴ 30
1
vote
4
replies
798
views
How do I design my DESEQ experiment?
DESeq2 Metagenomics
15 months ago Michael • 0
0
votes
0
replies
571
views
ALDEx2 Error Message: "dim(X) must have a positive length" when using aldex.clr() with denom="iqlr"
Metagenomics IQLR ALDEx2
17 months ago cwarden45 • 0
1
vote
0
replies
643
views
Shotgun metagenomics data analysis
Metagenomics abundance
19 months ago YASIR ▴ 10
2
votes
2
replies
1.2k
views
How to get started with DeseqDataSet import using CSV? Is it necessary to have ColData command?
Metagenomics DESeq2
updated 22 months ago by ★ 4.2k • written 22 months ago by • 0
0
votes
1
reply
921
views
Job: 'Omics data analyst for HPCBio, University of Illinois
Metagenomics GenomicVariation Genomics RNASeq ChIPSeq
22 months ago Jenny Drnevich ★ 2.0k
0
votes
1
reply
860
views
Tool for metagenomic functional analysis with 4-factor study design
Metagenomics DESeq2 metagenomeSeq edgeR KEGG
updated 2.1 years ago by 42k • written 2.1 years ago by • 0
0
votes
1
reply
2.2k
views
Import MetaPhlAn3 to Phyloseq
Metaphlan3 Metagenomics phyloseq
updated 2.9 years ago by ★ 1.1k • written 2.9 years ago by • 0
0
votes
0
replies
992
views
Pattern Search in MicrobiomeAnalyst
metagenomeSeq Metagenomics microbiome microbiomeExplorer
2.9 years ago GlycineMax • 0
0
votes
1
reply
792
views
FDR Correction
dada2 Metagenomics DESeq2
updated 3.0 years ago by 42k • written 3.0 years ago by • 0
3
votes
3
replies
1.2k
views
Using DESeq2 to identify changing transcriptional activity in a metagenome
Metagenomics DESeq2 Metatranscriptomics
updated 3.1 years ago by 42k • written 3.1 years ago by • 0
0
votes
0
replies
1.0k
views
How to compute the "completeness" of a KEGG module using a set of KEGG orthologs? (Module Completion Ratio)
KEGG KEGGREST keggorthology Metagenomics
3.2 years ago jol.espinoz ▴ 40
17
votes
4
replies
33k
views
Error in DESeqDataSet : some values in assay are not integers
deseq2 metagenomics
updated 3.8 years ago by ▴ 210 • written 3.8 years ago by ▴ 10
0
votes
1
reply
1.1k
views
Can I use pseudocounts for differential abundance of OTUs?
metagenomics deseq2 PHYLOSEQ
updated 3.8 years ago by 42k • written 3.8 years ago by • 0
1
vote
1
reply
1.2k
views
WGCNA threshold without prior knowledge of scale-free propery
wgcna weighted correlation network analysis correlation matrix scale-free topology metagenomics
updated 5.4 years ago by ★ 3.0k • written 5.4 years ago by • 0
0
votes
0
replies
1.3k
views
What is the recommended method for running WGCNA on large metatranscriptomic dataset?
wgcna transcriptome big data metagenomics gene expression
6.3 years ago jol.espinoz ▴ 40
0
votes
0
replies
1.3k
views
Job: Bioinformatics Specialist at the University of Illinois
job bioinformatics microbiome metagenomics epigenomics Job
6.3 years ago Jenny Drnevich ★ 2.0k
1
vote
1
reply
1.8k
views
Should I normalize communities separately with metagenomeseq?
metagenomeseq microbiome gut microbiome metagenomics shotgun metagenomics
updated 6.5 years ago by ▴ 280 • written 6.5 years ago by ▴ 10
4
votes
11
replies
2.2k
views
DESeq2 on 16S copy number corrected genes
deseq2 metagenomics
updated 6.7 years ago by 42k • written 6.7 years ago by ▴ 10
1
vote
3
replies
1.9k
views
Error bars on DESeq2 visuals
deseq2 metagenomics phyloseq ggplot2
6.8 years ago lauren.czaplicki • 0
0
votes
0
replies
1.3k
views
Phylogenetic tree from marker genes
ape phyloseq dist metagenomics
7.1 years ago David ▴ 860
3
votes
5
replies
2.5k
views
DESeq2 to clustered metagenomic data
deseq2 metagenomics
updated 7.5 years ago by 42k • written 7.5 years ago by • 0
2
votes
3
replies
6.2k
views
DESEq2 error when performing exploratory analysis with no replicates
software error deseq2 metagenomics
updated 7.5 years ago by 42k • written 7.5 years ago by • 0
0
votes
5
replies
1.8k
views
MetagenomSeq, perform anova or kruskall wallis with three groups ?
metagenomeseq anova metagenomics
8.1 years ago • updated 8.0 years ago David ▴ 860
0
votes
2
replies
2.0k
views
Advice on normalization with metagenomics data
metagenome normalization metagenomics
8.1 years ago David ▴ 860
4
votes
4
replies
3.3k
views
edgeR and gene filtering
edger metagenomics gene abundance gene filtering
8.6 years ago jtremblay514 • 0
0
votes
1
reply
1.3k
views
Influence of average genome size on DESeq2 results
deseq2 normalization metagenomics
updated 8.6 years ago by 42k • written 8.6 years ago by • 0
8
votes
0
replies
3.6k
views
Tutorial: Statistics and Computing in Genome Science (CSAMA) Course Material
rnaseq chipseq visualization metagenomics proteomics Tutorial
8.9 years ago Martin Morgan 25k
2
votes
8
replies
3.4k
views
edgeR for metagenomic data
edger metagenomics
updated 9.0 years ago by ▴ 280 • written 9.0 years ago by ▴ 70
1
vote
5
replies
2.9k
views
baySeq issues and questions
bayseq metagenomics
9.6 years ago • updated 9.3 years ago lordbleys • 0
0
votes
2
replies
4.5k
views
Pathway enrichment in bacteria metagenomes
pathways metagenomics
updated 9.5 years ago by ★ 1.6k • written 9.5 years ago by ▴ 100
5
votes
5
replies
2.0k
views
Metagenomic analysis: Aligning ChIPseq data on TSS
metagenomics chipseq biomart shortread convert biomaRt
9.7 years ago patrick.schordert ▴ 30
0
votes
1
reply
1.5k
views
mouseData in heatmap of metagenomeSeq package
Metagenomics metagenomeSeq Metagenomics metagenomeSeq
updated 10.2 years ago by ▴ 280 • written 10.2 years ago by ★ 13k
35 results • Page 1 of 1
Recent ...
Replies
Comment: Why is longestConsecutive() depreceated in version 2.72 (BioC version 3.19)? by ATpoint ★ 4.2k
The source script of the C function is available, just take it and compile the longestConsecutive function yourself, that's the easiest I g…
Comment: How to run allelic imbalance in apeglm by parayod376 • 0
Which I care about. [Papa's games][1] thank you for sharing the information. [1]: https://papasgamesfree.github.io
Comment: Cannot install oligo on Fedora by James W. MacDonald 66k
FYI, I emailed Benilton and he says he's working on a fix, so stay tuned!
Answer: Error in render R qmd document (could not find function "process") by James W. MacDonald 66k
If you have functions in another R document, you have to `source` that document to load the functions into your workspace. Just like you wo…
Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by atan • 0
Thank you! I ended up running it with a gtf on command line, partially because I couldn't figure out how to list multiple files in R for in…
Votes
Reduce the number of nodes appear in the cnetplot of clusterprofiler
A: DESeq2: add annotations (from data frame) to DESeqDataSet
Answer: Error in gseDO function
Comment: what the test method for enrichGO in clusterProfiler?
A: Comparison between two different group's pathway analysis results
Awards • All
Popular Question to shepherl 3.9k
Popular Question to Guido Hooiveld ★ 4.0k
Popular Question to Chris ▴ 10
Popular Question to Dario Strbenac ★ 1.5k
Popular Question to Robert Castelo ★ 3.3k
Locations • All
Germany, 4 minutes ago
Vietnam, 9 minutes ago
WEHI, Melbourne, Australia, 10 minutes ago
Taiwan, 14 minutes ago
Switzerland, 18 minutes ago
Traffic: 611 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6