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I tried running your Prophage_Tracer for the first time today and I got this error
awk: cmd. line:1: fatal: division by zero attempted
I followed your directions to index with bwa, then map with b…
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Suggestions provided by @haruosuz
- bactopia can accept GFF3 files (.gff) instead of FASTA files (.fna) as input, like PIRATE and Roary, to skip Prokka?
- bactopia can do alignment trimming (e.g. …
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## Friday, October 12
### Project Background
#### Prior Sample/Data Processing
* Samples collected from marine environments around the world
* Water sample collected
* Filtered to isolate vir…
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Hi,
SimPlot++ is great and exactly what I was looking for. So thanks for the tool.
However, I found an error while installing it on my Ubuntu machine with the `bokeh` package. Apparently I have …
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Hi,
I am attempting to load stringtie output data into R but get multiple errors in doing so:
data_directory = system.file('extdata2', package='ballgown')
bg = ballgown(dataDir=data_directory, sampl…
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Hi there,
I have a couple of questions...
1) I am running SwiftOrtho on around 700 bacterial genomes. I substituted step 1 with a diamond run (with a suitably increased max-hits pram) and by run…
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Hi,
My data contains 133 MAGs and 7 set of metagenomic reads. All MAGs are classified into 13 microbial phyla/classes according to functional network and metabolic Sankey diagrams.
But I found tha…
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Contributors: @jennaj @griffinp @kpoterlo @yvanlebras @BoughAida @ssander5 @devikaatgit @cschu @tnabtaf @kmurat1
This issue is dedicated to Training Data hackathon group. The idea is to gather sample…
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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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Right now there are 155 database cross-references in UniProt:
- http://www.uniprot.org/database/
I want to discuss here
- [ ] which ones are essential
- [ ] a reasonable, flexible model for cross-ref…