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We need 'em
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Hi,
I run the following command to classify some 16S amplicon sequences:
hmmufotu gg_97_otus_GTR unmapped_otus_rev.fasta -s 0 -t 0 > hmmufotu_gg_97_unmapped.out
I noticed that some reads hav…
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### Description of the bug
I am recently running the viralrecon 2.6.0 on some sars-cov-2 sequences; I noticed that ivar.tsv output doesn't match with the snpeff. annotated vcf as well as the varian…
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Hi,
I am just testing the tool on my FASTQ files and always getting an error "buffer overflow detected". What does it mean?
Do FASTQ files need any preprocessing (e.g. a header change)?
Sho…
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Related to #716
## Expected Behavior
a) Value from format field should not be modified and
b) "formats may be tested by exact match"
c) ` format: [gz]` in job file and `format: [gz]` in tool/…
wilke updated
6 years ago
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Hello,
Thanks to develop this fantastic pipeline.
I'm looking forward to reading your paper!
I have amplicons from a nanopore metabarcoding run that did not span 16S rRNA gene but another gene.
I…
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Hello,
I'm wondering if anyone can assist with some issues I'm having re: locus assignment.
Some of my forward primers include ambiguous nucleotides (K, W, R, etc.) and some of the expected STR…
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Hello Kristoffer,
I ran `NGSpeciesID` with the following command:
```
for file in *.fastq; do
NGSpeciesID --t 4 --ont --fastq $file \
--consensus --medaka \
--abundance_ratio 0.005 \
--rc…
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Hello! I am new to CAMISIM and am running into a bit of a roadblock. I am attempting to run metagenome_from_profile.py using the default_config.ini file using the instructions that you gave in the man…
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Vsearch seems to never detect chimera with default parameters.
I think it lies on the fact that sequences are not dereplicated and therefore do not have a "count" section in fasta header.
However…