gapseq
gapseq copied to clipboard
jotech
Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks
Can the model be used on windows and what is the recommended minimum configuration problem: Collecting package metadata (repodata.json): done Solving environment: failed
Dear Gapseq developers I made a Bioconda recipe for Gapseq. https://anaconda.org/bioconda/gapseq I have a large interest in applying Gapseq to my research. And especially for designing larger pipelines as well...
@jotech, it looks like that readthedoc is not automatically updating the gapseq documentation webpage after a change in the documentation files. Are there perhaps some configurations that need to be...
> for bug reports and errors please report the output of: ./gapseq test ❯ R CMD INSTALL --configure-args=" \ --with-sbml-include=$CONDA_PREFIX/include \ --with-sbml-lib=$CONDA_PREFIX/lib" sybilSBML_3.1.2.tar.gz rm sybilSBML_3.1.2.tar.gz * installing to library '/home/qing/miniconda3/envs/gapseq-dev/lib/R/library'...
Hi, after some issues with Archaea reconstructions not predicting methanogenesis we tried to debug with the example provided in the docs. The exact assembly used in the example has been...
Related to #228, opening a new bug since I can't reopen the old one and this is a new example. We are still seeing failures in gapfilling for Archaea with...
Hello, I was generating a model using gapseq with database as vmh and pathway database as kegg. Although gapseq returned a valid model, the reactions in the model have ids...
Hi, First of all (once again) thanks for developing this tool! I'm opening this issue because I've noticed some discrepancies between the results of auxotrophy prediction of `gapseq` and `GapMind`...
