search

CGATOxford / UMI-tools

Tools for handling Unique Molecular Identifiers in NGS data sets
MIT License
493 stars 190 forks source link

{is} prepare for rsem #609

Closed IanSudbery closed 1 year ago

IanSudbery commented 1 year ago

Add new command that allows UMI-tools output to be used with tools that expect pairs to be adjacent to each other in the output, such as RSEM and salmon.

IanSudbery commented 1 year ago

Fix for #607. This was a branch that was created against 1.1.2, but never integrated into the main trunk.

pinin4fjords commented 9 months ago

Will there be a release soon to include this?

TomSmithCGAT commented 9 months ago

@pinin4fjords - yes! It looks like the last release (v1.1.4) is now close to a year behind the github repo.

I'll sort this very soon. I've left Ian to man the ship all by himself for almost all that time so I'll need to aquaint myself with the any updates first.

TomSmithCGAT commented 9 months ago

@pinin4fjords - 1.1.5 has now been released on github. I'll check back on bioconda later when the BiocondaBot has had a chance to try and update.

pinin4fjords commented 9 months ago

Great- thanks @TomSmithCGAT !

pinin4fjords commented 9 months ago

Merged! https://github.com/bioconda/bioconda-recipes/pull/45795

(I fixed a minor linting issue)

TomSmithCGAT commented 9 months ago

Thanks @pinin4fjords. For my own education, what is the run_export doing?

pinin4fjords commented 9 months ago

See https://bioconda.github.io/contributor/linting.html#missing-run-exports

Obviously feel free to tweak for future builds :-)