granek / aimhii

AIM-HII

There are several different ways to install AIM-HII:

1. Docker: recommended for a standard desktop
2. Pip: recommended for a bioinformatics server
3. Git: recommended for pros

The bioinformatics software that AIM-HII depends on is described in the Software Dependencies section.

For details about the input files to AIM-HII, and options see Running AIMHII. There are some differences specific to running from Docker that are discussed in Quick Start to analyze your own data section of the Docker Installation Instructions.

Note that in the instructions, text that has this formatting should be typed at the command line.

Citation

If you use AIMHII, please cite the publication:

Esher SK, Granek JA, Alspaugh JA. Rapid mapping of insertional mutations to probe cell wall regulation in Cryptococcus neoformans. Fungal Genet Biol. 2015 Sep;82:9-21. doi: 10.1016/j.fgb.2015.06.003. Epub 2015 Jun 23. PMID: 26112692; PMCID: PMC4693612.