Humann

New Features

* Software and databases were upgraded to be compatible with the latest Diamond (v0.8.22).
* Added new humann2_regroup_table mappings between EggNOG and UniRef50/90.
* Added new humann2_rename_table mappings for Pfam, EggNOG, GO, and Informative GO.
* Database files for humann2_infer_taxonomy are now discoverable after downloading the utility mapping dataset.

Bug Fix

* Informative GO now uses bare GO identifiers to avoid a conflict with HUMAnN's stratification syntax. Names can be attached to Informative GO identifiers using humann2_rename_table.
* Remove requirement of future package for python2.

New Features

* HUMAnN is now wheel compatible.

New Features

* HUMAnN is now python3 compatible.

Bug Fix

* The cigar string calculation has been updated to allow for multiple M fields along with I/D fields.

Bug Fix

* Synced up the names of three rename files with those selected in the humann2_rename_table script.

New Features

* A new visualization tool named "humann2_barplot" has been added.
* A new association tool named "humann2_associate" has been added.

New Features

* A new tool named "humann2_infer_taxonomy" has been added.
* A new option, "--gap-fill <on/off>", was added. The default is set to off.
* A new option, "--taxonomy_level <Genus>", was added to humann2_split_tables. The default is "Genus". This option allows the user to select the level of taxonomy printed from input files that were created with PICRUSt predict_metagenomes.py.
* A new minimal demo set ( input files, demo chocophlan, and demo uniref90 database) was added. This includes more unclassified hits.
* A new database download set ( utility_mapping ) has been added to the download databases script. This download includes the large rename, regroup, and infer taxonomy data files. After downloading this data set with the humann2_databases command, additional options are available for the rename and regroup scripts.
* Rename and regroup files for UniRef90 have been added. Also regroup files for pfam are now available.
* The uniref to metacyc mapping file has been updated to use centriods so that it is consistant with the latest regroup mapping files.