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DADA2
•
reset
0
votes
2
replies
581
views
Issue when attempting to use output from DECIPHER IDtaxa (pr2 V5) with dada2/phyloseq
DECIPHER
taxonomyassignment
phyloseq
dada2
Pr2V5
updated 16 days ago by
Daniel
• 0 • written 12 weeks ago by
Maggie
• 0
0
votes
4
replies
1.3k
views
Trouble Installing DADA2 (warning: R new user)
dada2
updated 9 months ago by
shepherl
4.1k • written 9 months ago by
schott01
• 0
0
votes
2
replies
890
views
Species level information couldn't find with DADA2 bioconductor package
Metagenomics
dada2
MicrobiomeData
9 months ago • updated 7 months ago
abhisek001
• 0
0
votes
1
reply
577
views
Problem in execuation of filterAndTrim command in DADA2
Bioconductor
dada2
10 months ago • updated 9 months ago
abhisek001
• 0
0
votes
0
replies
602
views
is Dada2 biased toward a particular sequence ?
virology
dada2
amplican
Sequencing
RNASeq
17 months ago
Sara
• 0
0
votes
0
replies
688
views
Using DADA2 for finding viral sequence variants
VariantDetection
dada2
RNASeq
17 months ago
Sara
• 0
2
votes
2
replies
748
views
Broken UNITE 9.0 link (General FASTA Release)
dada2
UNITE
19 months ago
GlycineMax
• 0
0
votes
14
replies
2.9k
views
Trouble downloading dada2
dada
dada2
2.1 years ago
elliottchon97
• 0
0
votes
3
replies
1.5k
views
Problem with multiple sequence alignment using AlignSeqs
R
dada2
DECIPHER
updated 2.3 years ago by
Erik Wright
▴ 150 • written 2.3 years ago by
Nelli
• 0
0
votes
2
replies
1.2k
views
Microbiome 16S amplicon analysis in dada2
bioinformatics
DADA2
2.6 years ago
anasjamshed1994
• 0
1
vote
3
replies
1.5k
views
Assign taxonomy is not working
Assigntaxonomy
dada2
updated 3.0 years ago by
shepherl
4.1k • written 3.0 years ago by
safiq713
• 0
27
votes
13
replies
19k
views
problems about installation of package ‘Rhtslib’, ‘Rsamtools’ ,‘GenomicAlignments’ , ‘ShortRead’ on macOS Big Sur using R 4.1.0
dada2
updated 2.2 years ago by
Yoon Young
• 0 • written 3.9 years ago by
lh290
▴ 60
0
votes
4
replies
2.3k
views
Cannot install Phyloseq and dada2
GenomeInfoDbData
phyloseq
dada2
3.2 years ago
ymtan
• 0
0
votes
0
replies
1.1k
views
Construct a phyloseq object directly from the dada2 outputs
phyloseq
dada2
3.6 years ago
Manijeh
• 0
0
votes
0
replies
1.3k
views
dada2 (derepFastaq function) 'Calloc' could not allocate memory (1000000 of 16 bytes) in r version 4.1.0
dada2
3.7 years ago
Yoan
• 0
0
votes
5
replies
2.8k
views
Do DECIPHER:IdTaxa / dada2::assignTaxonomy work with ambigious reference training set?
decipher
dada2
updated 3.8 years ago by
fabian.roger08
▴ 10 • written 5.1 years ago by
fabian.roger
• 0
0
votes
1
reply
1.0k
views
FDR Correction
dada2
Metagenomics
DESeq2
updated 3.9 years ago by
Michael Love
43k • written 3.9 years ago by
GlycineMax
• 0
4
votes
8
replies
5.0k
views
Is there a different way to generate a tree for phyloseq object
r
dada2
Bioconductor
updated 3.9 years ago by
Axel Klenk
★ 1.1k • written 3.9 years ago by
mschmidt
▴ 10
0
votes
0
replies
1.3k
views
DECIPHER Package on dada2 -Implementing Silva_metaxa2 training set from qza file into a fastq.gz/.Rdata
DECIPHER
dada2
4.0 years ago
anrongloh
• 0
1
vote
1
reply
4.7k
views
Setting up bioconductor on a Linux server using conda
dada2
conda
phyloseq
updated 4.0 years ago by
James W. MacDonald
68k • written 4.0 years ago by
Daniel
• 0
0
votes
0
replies
1.4k
views
from raw reads ASV table - dada2 - small number of merged pairs
dada2
515F - 806Rd
5.0 years ago
beginner87
• 0
0
votes
1
reply
2.2k
views
Error: record does not start with '@'
DADA2
.fq
updated 6.2 years ago by
James W. MacDonald
68k • written 6.2 years ago by
mafusa20
• 0
0
votes
1
reply
1.3k
views
Cannot Update Biostrings to Latest Version
dada2
biostrings
updated 6.7 years ago by
James W. MacDonald
68k • written 6.7 years ago by
gradypierroz
• 0
4
votes
4
replies
3.0k
views
Using DADA2 output for DESeq2
deseq2
dada2
updated 7.1 years ago by
benjamin.j.callahan
▴ 50 • written 7.1 years ago by
blastzone.heimerdinger
▴ 20
0
votes
1
reply
2.0k
views
dada2 unavailable for R 3.4.1
bioconductor
R
dada2
updated 7.6 years ago by
daniel.vantwisk
▴ 50 • written 7.6 years ago by
rggriggs
• 0
1
vote
7
replies
20k
views
Dada2 and GenomeInfoDbData installation
dada2
GenomeInfoDbData
updated 7.8 years ago by
jiangjing_ing
• 0 • written 7.8 years ago by
navlern
• 0
26 results • Page
1 of 1
Recent ...
Replies
Comment: DESeq2 - human data, weird results, troubleshooting
by
bd2000
▴ 30
I didn't include all of my code the post would be too long. Here's a link to my GitHub if anyone would like to see the full code: [Full Rst…
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
James W. MacDonald
68k
The simple answer is that the within-group variability is much higher for the first gene as compared to the second. The Wald statistic is j…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
ATpoint
★ 4.8k
> since there doesn't seem to be as much count variability, No? Your CD45 samples range on normalized scale from 2 to 3255. That's 3 orde…
Comment: Ensembl site unresponsive via biomaRt
by
darylruiz6545
• 0
Thank you so much for sharing the link.
Comment: compute_fasta_digest does not match Salmon index hash
by
Alex
• 0
I use the `fastaDigest` tool from [COMBINE-lab/fastaDigest](https://github.com/COMBINE-lab/FastaDigest/), which has the function `compute_f…
Votes
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin
Two EPIC Methylation Array Analysis Questions
How to get DMR for Infinium methylation EPIC v2
A: GEOquery Fails to Download Series Matrix File
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
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