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Dear,
This is a very interesting tool and I'm busy exploring how it works. However, it seems to struggle with replacing in some reads. In the image, you can see the result in IGV. After using bamsu…
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Hi Ben,
Apologies for the multiple questions. I ran singlem separately on my metagenome reads and my MAGs. I then separated each marker and clustered them using the default species-level identity. …
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Hi,
I have been trying to analyze my sequencing data that come from an AVITI platform instead of Illumina. The FASTQ quality score are higher than 41, which results in an error when I run the itsxp…
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Thank you for developing this incredible tool! I'm testing it out by reproducing some of the recombinant clades described in [pango-designation](https://github.com/cov-lineages/pango-designation). So …
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Hi
I have been given some fastq files post demultiplexing via Guppy and I was thinking to checking chimera reads. This data is amplicon data from FMD virus (Amplicon size 400bp). The genome of mRNA…
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Clair3 does not call 16 bp at each end of a reference sequence (https://github.com/HKU-BAL/Clair3/issues/257)
Supplement Clair3 calls with Bcftools mpileup/call?
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For example,
Simply changing
**a**cerates viridiflora (raf.) eaton
https://api.gbif.org/v1/species/match?name=acerates%20viridiflora%20(raf.)%20eaton
to
**A**cerates viridiflora (raf.) eaton…
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### Overview
We are encountering some issues in obtaining appropriate estimates of error rates; I believe these problems are coming from our new(-er) sequencing facility sending us fastq files contai…
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Using https://docs.google.com/spreadsheets/d/1FFyRhI5TeUb-B4t50HRZYF_XngRt_mfAIz82UQ3geFk/edit#gid=0
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Hello,
I am trying to analyze the humann output files to obtain the differentially abundant pathways in each group using aldex2_kw.
however I got this error
Error in aldex.clr.function(reads, con…