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Dear Salmon Team,
Not sure if this message should go here or on the google group, sorry if it shouldn't go here.
I am trying to analyse meta-transcriptome RNAseq data to obtain genes expressio…
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## Feature request
### Tool(s) or class(es) involved
PathSeq
### Description
I would like the PathSeq scoring approach to be able to consider UMIs such as those used in scRNA sequencing experi…
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Thanks for the nice tool! Is it possible for this tool run against the customed microbial genomes?
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Not sure what's going on, wondering whether this is a bug or just a mistake in my code.
Basically after having merged two models using `merge_models`, the predicted **topic** using `transform` is c…
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This issue can serve as a placeholder for use cases for sourmash/MinHash more generally.
Stuff we already have implemented:
* basic MinHash comparisons etc
* metagenome taxonomy breakdown
* st…
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@timrobertson100 @thomasstjerne @cmungall @pieterprovoost @79-6d
Following our meeting today, would you mind scoping out how you'll test exchanging a MIxS TSV for an attempt to auto-convert it int…
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- Keightly 2005:
- http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1240079/
- intro explains some of the problems associated with identifying conserved noncoding elements (CNEs)
- Siepel 2005:
- htt…
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I was working with a sample made of 50% universal human reference and 50% a bacterial community reference. I used Bracken to get community composition and it removed millions of human reads and reall…
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Thank you for this wonderful tool!
Should we filter out the host (human) genome before executing the pipeline e.g. using kneadData or fastp? the same also applies to the PhiX genomes?
I tried He…