dada2

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Hey

3

I am trying to run out any(duplicated(c(filt.dataF))) [1] TRUE I am new to R so I am confused and am not sure what to do. Kindly help

Otshepeng0157

Sequences with binominal species aren't in silva_species_assignment_v138.1.fa.gz

1

I was looking at the function making the silva_species_assignment_v138.1.fa.gz file from SILVA_138_SSURef_tax_silva.fasta.gz. I noticed that since only sequences with 7 taxonomy fields are chosen, some sequences who do have binomial...

salix-d

Hi, I tried to use makeTaxonomyFasta_RDP to convert databases for RDPClassifier maintained by Frogs team (http://genoweb.toulouse.inra.fr/frogs_databanks/assignation/readme.txt) without success. After debugging, it seems that the problem is linked to the fact...

BELKHIR

getting such merged and nonchim results.

5

hi I am getting these results, but I am not sure whether I am doing correctly or not. are the merged and nonchim fine like i am getting results less...

komalchrs

Duplication of Species column when using addSpecies function

19

Hi @benjjneb To assign the taxonomy of v4 sequences, I use 2 consecutive steps according to dada2 tutorials: `taxa

emankhalaf

Error in DADA2 for microbial analysis

3

Hi Ben, I am working on analyzing demultiplexed data from shoreline Biome kit (Pacbio). I am kind of new in this so reaching out to you if you can help...

Vetshweta

Filter suspicious taxa

3

Hi, should any filtering for suspecious species in 16S data be done beyond the chimera filtering and filtering for singletons in phyloseq objects? For example filter out species which are...

termithorbor

dada2 mergeSequenceTables duplicated names

2

Hello All I am trying to analyze amplicon NGS results by parallel processing and combine them at the end by using merageSequenceTables function. When I tried to combine seqTables, it...

sunnytov77

Error in dada2 object 'tax' not found

5

I am using dada2. I keep getting: Error in base::try(tax, silent = TRUE) : object 'tax' not found after running: ```{r} out

luna32-mwsr

Non-corresponding derep-class and dada-class objects

1

Hi! I'm stuck at the mergePairs step and have gotten this error: Error in FUN(X[[i]], ...) : Non-corresponding derep-class and dada-class objects. I've already checked to make sure dada() and...

katmcferrin