OPAL

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How to convert into CAMI Bioboxes format?

2

Hi there. I am not sure how to convert my taxonomic profile into the CAMI Bioboxes Format. Suppose I run 2 different tools for taxonomic binning and convert the results...

eparisis

https://github.com/CAMI-challenge/OPAL/blob/b30b2e4fc3edd7895e8fcb07d46f60bc9238d894/requirements/default.txt#L4 Newer version of pandas does not support Python 3.7 any longer.

dawnmy

Bumps [numpy](https://github.com/numpy/numpy) from 1.21.4 to 1.22.0. Release notes Sourced from numpy's releases. v1.22.0 NumPy 1.22.0 Release Notes NumPy 1.22.0 is a big release featuring the work of 153 contributors spread...

dependabot[bot]

Add option to filter out certain taxa

fernandomeyer

Per Alice's suggestion, try adding the mean (1/2)L1 error to the absolute performance plots

dkoslicki

Due to changes in 428cd05, the old default of setting all branch lengths to 1 resulted in things like the following. For this profile: ``` # Taxonomic Profiling Output @SampleID:CAMI_LOW_S001...

dkoslicki

Currently metrics are not defined in readme - add explanation and define metrics

alicemchardy

We agreed on extending the initial tests we have so far in this repository.

pbelmann

Bumps [jinja2](https://github.com/pallets/jinja) from 3.1.2 to 3.1.3. Release notes Sourced from jinja2's releases. 3.1.3 This is a fix release for the 3.1.x feature branch. Fix for GHSA-h5c8-rqwp-cp95. You are affected if...

dependabot[bot]

Use OPAL for metabarcoding assessment

2

We are planning to benchmark a set of metabarcoding tools and I thought to use OPAL. When investigating the tool, I thought one could use it for metabarcoding assessment just...

paulzierep