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questions
0
votes
2
replies
293
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Abundance Calculation in MetaPhlAn 3: Methodology, TPM or RPKM, and the Treatment of Unclassified Reads
MetaPhlAn
Normalization
RPKM
TPM
24 days ago by
ramin.k2013
• 0
0
votes
0
replies
167
views
Normalization in Metagenomics Sequencing By Total Number of Reads: Pre- or Post-Filtering and the Role of Unclassified Reads
Normalization
Metagenomics
updated 25 days ago by
Ram
43k • written 26 days ago by
ramin.k2013
• 0
0
votes
0
replies
349
views
Crassphage is not identified in fecal metagenomic samples using Metaphlan3 pipeline.
crassphage
metagenomics
gut
MetaPhlan
Kraken2
23 months ago by
ramin.k2013
• 0
3
votes
5
replies
1.3k
views
How to identify antibiotic resistant genes in gene databases?
antibiotic
Gene-Ontology
GO
updated 25 days ago by
Ram
43k • written 2.1 years ago by
ramin.k2013
• 0
0
votes
0
replies
481
views
How to map Uniref90 genes (IDs) to Antibiotic resistant genes databases?
CARD
metagenomics
Humann2
antibiotic-resistant-genes
uniref
updated 25 days ago by
Ram
43k • written 2.1 years ago by
ramin.k2013
• 0
0
votes
0
replies
316
views
How to create proteins of interest reference file for antibiotic resistant genes analysis?
ShortBRED
CARD
antibiotics
updated 16 months ago by
Ram
43k • written 2.1 years ago by
ramin.k2013
• 0
2
votes
4
replies
1.0k
views
Microbial community analysis pipelines in metagenomics
metagenomics
Kraken2
MetaPhlan3
updated 16 months ago by
Ram
43k • written 2.2 years ago by
ramin.k2013
• 0
0
votes
2
replies
2.8k
views
creating one abundance table of my samples using kraken2 output files
metagenomics
visualization
abundance
kraken2
updated 2.4 years ago by
patrickdm
▴ 230 • written 2.4 years ago by
ramin.k2013
• 0
0
votes
0
replies
922
views
fail to build kraken2 database (custom and standard)
Kraken2
updated 15 months ago by
Ram
43k • written 2.4 years ago by
ramin.k2013
• 0
1
vote
3
replies
909
views
synthetic samples for small datasets in bioinformatics
statistics
ML
updated 15 months ago by
Ram
43k • written 2.7 years ago by
ramin.k2013
• 0
1
vote
1
reply
602
views
accessing the global gut microbial gene catalogue (MEDUSA)
medusa
gene-catalogue
gut-microbiome
updated 25 days ago by
Ram
43k • written 3.3 years ago by
ramin.k2013
• 0
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