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Trying to run the read filtering workflow at https://dahak-metagenomics.github.io/dahak/quickstart/#read-filtering
After setting up the environment as noted in #99 and issuing the following command…
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# Title
Exploring and solving functional analysis gaps in metaproteomics.
# Abstract
Metaproteomics, the study of the full protein complement of microbial communities, is becoming an increasi…
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It’s sort of difficult to keep pace with all your different releases😀. So, which one should I use? Kraken, KrakenUniq or centrifuge??? I just have started centrifuge; should I move to KrakenUniq?
T…
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I have one dataset of 16 S sequencing of intestinal biopsies and another one from the stools which end up into different OTUs. I can find to which taxa does each OTU belong to and in the phylogenetic …
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Hi Phil,
MultiQC v1.5 is not finding BBsplit output, as defined [here](https://github.com/ewels/MultiQC_TestData/blob/master/data/modules/bbmap/sample1/sample1.statsfile). No errors thrown etc, fil…
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Hello Benjamin,
I have two questions for you regarding the prevalence function in Decontam at ASV level.
QUESTION 1:
I assume that the control samples should be the same (resemble each other …
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Briefly comment on this issue why you are interested in this mini-project.
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Hi Thom,
I remember listening to your bioformatics chat podcast (https://bioinformatics.chat/propr) a while back and recently dove into the literature on several compositional data analysis reviews/…
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i ran this:
$ taxpasta merge -p kraken2 -o kraken_silva138_merged.tsv /mnt/gpfs/scratch/projects/2024-hvn_metagenomics/*/*_trim_P_sealed_SILVA_kraken2.txt
got this back:
CRITICAL Error in sample '…
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> In fact, for three of these four animal coronaviruses, the strongest correlation between the number of viral and animal reads is for the animal species known to be infected with the virus...
The …