CAMISIM 2.0.1

This version includes:

• Bug fixes
• Support for new NCBI taxonomy (new ranks: acellular root, realm, etc.)
• Updated NanoSim 3.2 profile
• Use of coverage instead of number of reads as input for NanoSim
• Updated genome-to-OTU assignment algorithm

CAMISIM 2.0

The new CAMISIM2.0 is finally ready, please find the documentation in the wiki

A lot of issues should be resolved by this, but if you notice anything out of the ordinary, feel free to open an Issue. It is likely that some errors might have slipped in, but we will try to fix them asap

Final CAMISIM1 version

This release is to fix the last CAMISIM1 version, before the release of CAMISIM2

• Updated and fixed Nanosim3
• Further bug fixes and QoL improvements

1.3

Creating tag to update dockerhub version:

• Updated to python3
• Updated NanoSim to latest version (still some minor inconsistencies with CIGARs, they have temporarily been disabled)
• Allowed the usage of own/arbitrary error profiles for ART (thanks to @KatSteinke )
• Added automatic database update for getting genomes from BIOM profile

Work for a 2.0 version using nextflow is in progress

CAMI 2 simulation

Version for the simulation of the CAMI2 data. Also includes more test/default data, fixing #77

Little Helper

Addition of helper scripts for metadata and hybrid samples

Publication release

Officially releasing all the new features (i.e. from_profile) before the CAMISIM publication is out. Enjoy!

CAMI creation

State of the pipeline which was used for creation of the data sets used in the first CAMI challenge.