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## Tasks
1. all PCGs BLAST all-vs-all search - diamond.py
2. gene sets construction
3. real alignments to respective sample contigs specific to gene coordinates
4. module detection of coverage-c…
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Email from Dail:
... we continue to believe that it is essential to link a GB# to these "uncultured" tips. The GB#s are already linked in SILVA so this should (hopefully) be straight forward.
JAR:
S…
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Biclustering is a relatively common modeling task in omics data exploration.
Add biclustering as a visualization technique to miaverse. Note that it has at least two uses:
1) taxa x samples mat…
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Hi, Soren,
Thank you for developing the tool. It is easy to install and I can run your test dataset successfully.
However, when I run my own fastq file with the corresponding f/F/r/R sequences, I …
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@rob-knight suggested: we should definitely do some blooming taxa analysis as per the Shade paper and maybe encourage Ashley to do that.
Ashley Shade is at Michigan State.
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Hi - Hola .
I hope your help, please.
I download classifier with command:
$git clone https://github.com/rdpstaff/classifier.git
$cd classifier #for enter.
$ls #for list:
build build.xml ivy.xml…
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Hi Chi
[SRS ](https://github.com/vitorheidrich/SRS) is a method of normalization that is being used instead of rarefaction (which got huge debate against). Any possibility to add as an option? it a…
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Hi all,
I am planning on creating an R users group here, based on the Davis R Users Group:
http://www.noamross.net/davis-r-users-group.html
I think it would be really nice to have a local community w…
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(semi-random design thoughts)
main issue: do we need to compute all possible "choices"?
- 1. In multinomial and discrete choice models the endog is multivariate binary, so it is possible in some…
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Hi rdp staff,
I am trying to retrain RDP classifier using NCBI 16s database, however, when I looked into the example taxonomy file and the fasta file, I am a bit confused how should I even generate…