HaloGen v2.0

HaloGen (Hierarchical Bayesian Activity Level Orchestrator: Next Generation) is a statistical software package that calculates Likelihood Ratios (LRs) to aid in the interpretation of complex, low-level DNA evidence using a Bayesian hierarchical model. THIS WEB PAGE IS UNDER DEVELOPMENT

Note this model is strictly under development and is subject to changes - not the final version

The user manual is here: Halogen User Manual v2

The HaloGen app can be downloaded here: halogen_v2.0.tar.gz

Resources can also be downloaded from The github site here: https://github.com/peterdgill/halogen

Test data for "New Lab" can be downloaded here: new_lab_data.csv

Tutorial, showing examples and some theory can be downloaded here: Halogen tutorial_v1.pdf

Details for developers and those who want specific details about the programs

Comprehensive access to the software and datasets used in the HaloGen project is provided below

The GeminiScript_v14 program was used to generate the results in the paper. It serves as the main engine for model fitting and simulations. It receives batch scripts using Batch.v16 script so that multiple simulations can be undertaken. The HaloGen App is restricted to a single test at a time, but the latter is designed for general users.

User Manuals and R scripts

IMPORTANT: Programs must be run in sequence shown

1) To generate the parameters, the user manual is Parameters_User_Manual_v1, and the software is Parameters_v3.R

2) The overview and user manual of the GeminiScript_v13.R_v1 program describes workflow and functions in detail

Access to the GeminiScript_v13 program is provided

3) To process batches, see the Batch_user_manual_v1 and software: BatchScript_v1.R

To save .rds files for use by the halogen app, use the rdsSaveScript.R

Tables Application Purpose

Grand_compilation_v2_ex3_1.xlsx input for parametersv3.R and Gemini_v13 Raw data from all labs to generate parameter outputs and to fit detailed lab specific model

output_direct.csv output by parametersv3.R; input to Gemini_v13 input parameters per lab for direct transfer

output_secondary.csv output by parametersv3.R; input to Gemini_v13 input parameters per lab for secondary transfer

new_lab_data.csv input for halogen "new lab "input data

V13_Defined_Cases_output.xlsx output from BatchScript_v1.R rapid batch processing for data used in tables of the paper