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dada2
•
reset
0
votes
2
replies
551
views
Issue when attempting to use output from DECIPHER IDtaxa (pr2 V5) with dada2/phyloseq
DECIPHER
taxonomyassignment
phyloseq
dada2
Pr2V5
updated 3 days ago by
Daniel
• 0 • written 10 weeks ago by
Maggie
• 0
0
votes
4
replies
1.2k
views
Trouble Installing DADA2 (warning: R new user)
dada2
updated 8 months ago by
shepherl
4.1k • written 8 months ago by
schott01
• 0
0
votes
2
replies
874
views
Species level information couldn't find with DADA2 bioconductor package
Metagenomics
dada2
MicrobiomeData
8 months ago • updated 6 months ago
abhisek001
• 0
0
votes
1
reply
554
views
Problem in execuation of filterAndTrim command in DADA2
Bioconductor
dada2
10 months ago • updated 8 months ago
abhisek001
• 0
0
votes
0
replies
599
views
is Dada2 biased toward a particular sequence ?
virology
dada2
amplican
Sequencing
RNASeq
17 months ago
Sara
• 0
0
votes
0
replies
681
views
Using DADA2 for finding viral sequence variants
VariantDetection
dada2
RNASeq
17 months ago
Sara
• 0
2
votes
2
replies
743
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
1.4k
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
18k
views
problems about installation of package ‘Rhtslib’, ‘Rsamtools’ ,‘GenomicAlignments’ , ‘ShortRead’ on macOS Big Sur using R 4.1.0
dada2
updated 2.1 years ago by
Yoon Young
• 0 • written 3.8 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
1.0k
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
3.6 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 3.8 years ago by
Michael Love
43k • written 3.8 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 6.6 years ago by
James W. MacDonald
68k • written 6.6 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 7.7 years ago by
jiangjing_ing
• 0 • written 7.8 years ago by
navlern
• 0
26 results • Page
1 of 1
Recent ...
Replies
Comment: DiffBind custom normalization factor
by
Abbie
• 0
Hello! Thanks so much for adding dba.normalize and all the documentation in the manual! I'm hoping I can ask a follow-up question here. I…
Answer: CpGs with genomic positions greater than the chromosome size in EPICv2?
by
James W. MacDonald
68k
All of the annotation packages provided by Bioconductor are simply repackaging of existing data from one or more sources. In this case, the…
Comment: Using TPM from tximport of Salmon output for singscore
by
Kent
• 0
Thank you for the suggestions Michael. Would you say that after filtering out the low count genes, `rlog(counts, blind = T)` is doing the s…
Comment: Using TPM from tximport of Salmon output for singscore
by
Michael Love
43k
For clustering generally we recommend `vst()` see the workflow for example. For working with individual samples, I can see how a scaling/t…
Comment: DESeq2 model - How to test case/control time course model when taking account wi
by
Michael Love
43k
I'd recommend working with a local statistician or someone familiar with linear models in R. I have to reserve my time on the support site …
Votes
clusterProfiler-GO enrichment Error
A: Machine learning in R book
Data preparation and Machine learning on time course RNAseq data
Data preparation and Machine learning on time course RNAseq data
Answer: Use of org.Rn.eg.db with GRCr8 reference genome
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