Maxime Borry

Unclassified sequences TAXID

3

In the NCBI taxonomy, there is on particulary useful TAXID: [12908](https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=12908&lvl=3&lin=f&keep=1&srchmode=1&unlock) for *unclassified sequences*. Would it be possible to preserve 12908 for unclassified sequences in `gtdb_to_taxump` or to add an...

[snpAD](https://bioinf.eva.mpg.de/snpAD) — an ancient-DNA aware genotyper ---- Please read the [guidelines for Bioconda recipes](https://bioconda.github.io/contributor/guidelines.html) before opening a pull request (PR). * If this PR adds or updates a recipe, use...

With this action, whenever a new release is published, the python distribution will be built automatically and uploaded on PyPi. One thing for the maintainer if merging this PR: add...

Add `.TCX` download with turn by turn navigation

1

Nice work on the new openrouteservice web frontend looks very nice, and renders very nice on mobile compared the classic one 😃 One thing that was added last year in...

CAT - Contig Annotation Tool custom database

1

As CAT database is quite large, a custom one would be needed to test nf pipelines/wf. This is apparently feasible to generate a small enought database for CI purposes https://github.com/dutilh/CAT/issues/65,...

feat: allow adna co-binning

1

This PR enables the possibility to perform co-binning when using the ancient DNA mode. Once merged, it can close #572 ## PR checklist - [x] This comment contains a description...

### Description of feature StrainXpress: strain aware metagenome assembly from short reads Paper: https://academic.oup.com/nar/article/50/17/e101/6625806 Repo: https://github.com/HaploKit/StrainXpress Bioconda package: not yet but maybe https://github.com/kangxiongbin/StrainXpress/issues/12 Excerpt from the StrainXpress paper: 

Tiara is not included in bin_summary

1

### Description of feature Tiara results are not reported in the BIN_SUMMARY process. It would be nice to have it included to centralize the bin domain classification information. Similarly to...

https://twitter.com/Sci_Hub/status/959702088543539200

For closing #133 ## PR checklist - [x] This comment contains a description of changes (with reason) - [x] Documentation in `docs` is updated