In mapping and predicting potential hotspots of wildlife species in a location, what software can be used? and what is the best method that can be used to produce a great results?
You can use R, and perhaps you can use Species Distribution Models (SDM) to predict the probability at locations of where certain wildlife species are likely to be concentrated.
If you are an R user, then I highly recommend this lovely introductory video:
https://www.youtube.com/watch?v=0VObf2rMrI8
Also, the full tutorials can be perused here:
https://rspatial.org/raster/sdm/
Check these out and see if they can address your problem.
For predicting potential hotspots of wildlife species in an area - MAXEnt is a better approach and there are a good number of papers on this topic - SDM
MaxEnt is a good model for predicting species distribution. Other models can also do the same job, such as logistic regression for presence/absence data, Poisson regression for abundance data, and a number of tree models such as random forest. If you want to setting conservation priorities, you need to consider conservation cost, here Marxan is a good option. Marxan is a free model for conservation planning.
Marxan is the most popular tool that supports systematic conservation planning (see the article published on Nature (Margules & Pressey 2000)) @ https://www.nature.com/articles/35012251. The manual of Marxan is
http://courses.washington.edu/cfr590/projectreadings/marxan-manual-1.8.10.pdf. I hope it helps.