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krassowski / multi-omics-state-of-the-field

Analyses for "State of the field in multi-omics research: from computational needs to data mining and sharing"
https://doi.org/10.3389/fgene.2020.610798
MIT License
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Search for package and dataset links #8

Closed krassowski closed 4 years ago

krassowski commented 4 years ago

Building upon the discussion from https://github.com/krassowski/multi-omics-state-of-the-art/issues/7#issuecomment-644144568: in addition to software control version repositories (GitHub/GitLab etc) we could try to match links to the CRAN/PyPI etc packages and Dryad/Zenodo/OSF records.

vd4mmind commented 4 years ago

Should not we include BioC? as well other than CRAN/PyPi as a major part of those packages are also in Bioconductor. Do you have a flow diagram at your end to just clarify the overall task you are trying to achieve here? I got the gist from here.

krassowski commented 4 years ago

Yes, Bioconductor should be included. This brings me closer to the ability to differentiate between "application" and "novel method" paper. This is also exploratory to learn what is out there and which tools are frequently used. Obviously this can give us support to claims on the use of certain tools/packages.