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Since coverM is meant to replace bamm, are there any comparable options/workflows for getting contig-linkage information or to extract all reads that map to specific contigs?
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Add support for user to do simulation under prior for arbitrary number of generations without having to actually analyze a dataset with BAMM
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The AASX Package Explorer "Help/Help on github" references https://github.com/**admin-shell**/aasx-package-explorer/tree/master/help
I expected it to reference some help file on admin-shell**-io**/aa…
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The conditional probabilities in BaMM model/background files are sometimes larger than 1, by a margin that is higher than numerical instability would suggest: e.g. 1.12 in the attached model file, and…
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Add a BAMM command-line option to automatically generate a configuration file with the default values for either a speciation/extinction or trait model, including their description.
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First off, thanks for working on this, I'm super excited to use this on some soil metagenome data I've been playing with.
I started to parse three mapping files and build a database, and I encountere…
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## Link to Standards Document
Standardization Document is not yet available in [library](https://catena-x.net/de/standard-library) but went through standardization.
Number; CX-0085
## MS1 Crite…
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Running bamm yesterday with
updateRateLambdaShift = 0
and lambdaShiftInit = 0
periodically sampled non-zero values for lambdaShift. This may be coming from the event proposals but must be looked in…
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Hello,
I've a problem with groopM. When I tried to create the database with the command:
groopm parse db.gm contigs.fa *.bam
I get the following error:
![groopmerror2](https://cloud.githubuserconten…
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**Is your task related to a problem? Please describe.**
There is a "see" attribute with type anyURI for referencing other dictionaires or ontologies. Sometimes, however, it is useful to add just text…