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Hello sir
I am facing a problem, I am trying to build a contingency table for amplicon with this script (`python amplicon_contingency_table.py P11_dereplicated.fasta > amplicons_table.csv`) and I g…
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I am a new user of swarm, after i run the swarm (code `./swarm -f -t 2 -z -o myfile.txt -w myfile.representatives.fasta amplicons_linearized_dereplicated.fasta myfile.swarms`) i got a file like that
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Hello,
I am doing a plant metabarcoding project, and I am interested in using the assignTaxonomy function to assign taxa from a personal plant reference database to sequences ranging from 10 to 15…
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Hi,
I have a number of samples that don't pass the filtering- which is absolutely fine (I don't want to try and salvage them)- and so there is no new file written in the filtered output (makes sen…
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Thank you very much for dada2! It is my new favourite method for working with MiSeq reads!
I do environmental metabarcoding so I need to create custom databases for community analysis. Would you ha…
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Please go to https://github.com/fish546-2018 and “Create a New Repository”. Please name the repository [firstname]-[oneword]. Adding a Readme file. In theory the one word would be associated with you…
sr320 updated
5 years ago
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In GitLab by @lentendu on Sep 14, 2018, 16:52
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Hello
I am trying to use pcr.seqs command
pcr.seqs(fasta=reference, )
to cut the reference for alignment.
The first question is if I want to use green gene as reference. Which reference should …
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What do you consider the five most relevant BedTools commands based on your research interest?
Please list them and indicate what each one does.
sr320 updated
5 years ago
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My name is Paul Roldan Olarte and I am an undergrad student at Universidad El Bosque in Bogota, Colombia. I'm currently analyzing metabarcoding sequences in DADA2. These sequences correspond to plants…